Locus 4525

Sequence ID 2L_DroMel_CAF1
Location 12,968,593 – 12,968,705
Length 112
Max. P 0.999452
window7119 window7120

overview

Window 9

Location 12,968,593 – 12,968,705
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.24
Mean single sequence MFE -27.34
Consensus MFE -22.68
Energy contribution -22.52
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.68
Structure conservation index 0.83
SVM decision value 0.96
SVM RNA-class probability 0.889438
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12968593 112 + 22407834
UUUAGCCCACAUAUAC-------AUAUGUAU-GCAUGUUUGCUUAGCCAUUUCCGGUUCGAUUUUAGCCCAAAUCUUGUCCAUUUUCUAGCCUAAGCAAACAAACGGAAACUGGCUUAGU
....((..(((((...-------.)))))..-))......(((.(((((((((((....(((((......)))))..............((....)).......)))))).))))).))) ( -24.60)
>DroSec_CAF1 13371 110 + 1
UUUAGCCCACAU--AC-------GUGUAUAU-GCAUGUUUGCUUAGCCAUUUCCGGUUCGAUUUUAGCCCAAAUCUUGUCCAUUUUCUAGCCUAAGCAAACAACCGGAAACUGGCUUAGU
.........((.--((-------((((....-)))))).))((.((((((((((((((.(((((......)))))..............((....))....))))))))).))))).)). ( -29.10)
>DroSim_CAF1 14197 110 + 1
UUUAGCCCACAU--AC-------GUGUAUAU-GCAUGUUUGCUUAGCCAUUUCCGGUUCGAUUUUAGCCCAAAUCUUGUCCAUUUUCUAGCCUAAGCAAACAAACGGAAACUGGCUUAGU
.........((.--((-------((((....-)))))).))((.(((((((((((....(((((......)))))..............((....)).......)))))).))))).)). ( -24.60)
>DroEre_CAF1 2027 112 + 1
UGUGGCCCACAUGUG-------UGUGUGUGU-GCAUGUUUGCUUAGCCAUUUCCGGUUCGAUUUUAGCCCAAAUCUUGUCCAUUUUCUAGCCUAAGCAAACAAACGGAAACUGGCUUAGU
....((.(((((...-------...))))).-))......(((.(((((((((((....(((((......)))))..............((....)).......)))))).))))).))) ( -27.70)
>DroYak_CAF1 14840 120 + 1
UACAGCCCACAUAUACGAGUAGUAUGCAUGUGGCAUGUUUGCUUAGCCAUUUCCGGUUCGAUUUUAGCCCAAAUCUUGUCCAUUUUCUAGCCUAAGCAAACAAACGGAAACUGGCUUAGU
.(((..((((((((((.....))))..))))))..)))..(((.(((((((((((....(((((......)))))..............((....)).......)))))).))))).))) ( -30.70)
>consensus
UUUAGCCCACAU_UAC_______GUGUAUAU_GCAUGUUUGCUUAGCCAUUUCCGGUUCGAUUUUAGCCCAAAUCUUGUCCAUUUUCUAGCCUAAGCAAACAAACGGAAACUGGCUUAGU
...((((............................(((((((((((((......))...(((((......)))))................)))))))))))...(....).)))).... (-22.68 = -22.52 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,968,593 – 12,968,705
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.24
Mean single sequence MFE -35.20
Consensus MFE -29.34
Energy contribution -29.18
Covariance contribution -0.16
Combinations/Pair 1.09
Mean z-score -3.31
Structure conservation index 0.83
SVM decision value 3.62
SVM RNA-class probability 0.999452
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12968593 112 - 22407834
ACUAAGCCAGUUUCCGUUUGUUUGCUUAGGCUAGAAAAUGGACAAGAUUUGGGCUAAAAUCGAACCGGAAAUGGCUAAGCAAACAUGC-AUACAUAU-------GUAUAUGUGGGCUAAA
....((((.......((.(((((((((((.(((.....(((....(((((......)))))...)))....)))))))))))))).))-.((((((.-------...))))))))))... ( -35.20)
>DroSec_CAF1 13371 110 - 1
ACUAAGCCAGUUUCCGGUUGUUUGCUUAGGCUAGAAAAUGGACAAGAUUUGGGCUAAAAUCGAACCGGAAAUGGCUAAGCAAACAUGC-AUAUACAC-------GU--AUGUGGGCUAAA
....(((((.(((((((((......((((.(((((............))))).)))).....)))))))))))))).(((..((((((-........-------))--))))..)))... ( -36.30)
>DroSim_CAF1 14197 110 - 1
ACUAAGCCAGUUUCCGUUUGUUUGCUUAGGCUAGAAAAUGGACAAGAUUUGGGCUAAAAUCGAACCGGAAAUGGCUAAGCAAACAUGC-AUAUACAC-------GU--AUGUGGGCUAAA
....((((..........(((((((((((.(((.....(((....(((((......)))))...)))....))))))))))))))..(-(((((...-------.)--)))))))))... ( -34.00)
>DroEre_CAF1 2027 112 - 1
ACUAAGCCAGUUUCCGUUUGUUUGCUUAGGCUAGAAAAUGGACAAGAUUUGGGCUAAAAUCGAACCGGAAAUGGCUAAGCAAACAUGC-ACACACACA-------CACAUGUGGGCCACA
.....(((.......((.(((((((((((.(((.....(((....(((((......)))))...)))....)))))))))))))).))-...((((..-------....))))))).... ( -33.50)
>DroYak_CAF1 14840 120 - 1
ACUAAGCCAGUUUCCGUUUGUUUGCUUAGGCUAGAAAAUGGACAAGAUUUGGGCUAAAAUCGAACCGGAAAUGGCUAAGCAAACAUGCCACAUGCAUACUACUCGUAUAUGUGGGCUGUA
....((((.......((.(((((((((((.(((.....(((....(((((......)))))...)))....)))))))))))))).))(((((..((((.....)))))))))))))... ( -37.00)
>consensus
ACUAAGCCAGUUUCCGUUUGUUUGCUUAGGCUAGAAAAUGGACAAGAUUUGGGCUAAAAUCGAACCGGAAAUGGCUAAGCAAACAUGC_AUAUACAC_______GUA_AUGUGGGCUAAA
....((((.......((.(((((((((((.(((.....(((....(((((......)))))...)))....)))))))))))))).))....((((.............))))))))... (-29.34 = -29.18 +  -0.16)

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 11:19:59 2006