Locus 5514

Sequence ID 2R_DroMel_CAF1
Location 17,659,233 – 17,659,341
Length 108
Max. P 0.940489
window8829 window8830

overview

Window 9

Location 17,659,233 – 17,659,341
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.00
Mean single sequence MFE -26.05
Consensus MFE -23.58
Energy contribution -23.10
Covariance contribution -0.48
Combinations/Pair 1.12
Mean z-score -1.39
Structure conservation index 0.91
SVM decision value 0.47
SVM RNA-class probability 0.748790
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17659233 108 + 20766785
AGAUUCUGGGCAGCUCACUUCUAAG------------ACUGGGAACCCAUUAAGUGGUAAGUGCUAAAAACGUAAAAAUAUUUAACAACCCGUGGUAUUUGUCAAACAUUUAAGCUGCCA
........(((((((..........------------..(((....))).....((..((((((((......((((....))))........))))))))..))........))))))). ( -25.34)
>DroSec_CAF1 12741 108 + 1
AGAUUCUGGGCAGCUCACUUCUAAG------------ACUGGAAACCCAUUAAGUGGUAAGUGCUAAAAACGUAAAAAAAUUUAACAACCCGUGGCAUUUGUCAAACAUUUAAGCUGCCA
........(((((((...(((((..------------..)))))..........((..((((((((......((((....))))........))))))))..))........))))))). ( -26.14)
>DroSim_CAF1 18706 108 + 1
AGAUUCUGGGCAGCUCACUUCUAAG------------ACUGGAAACCCAUUAAGUGGUAAGUGCUAAAAACGUAAAAAUAUUUAACAACCCGUGGUAUUUGUCAAACAUUUAAGCUGCCA
........(((((((...(((((..------------..)))))..........((..((((((((......((((....))))........))))))))..))........))))))). ( -24.14)
>DroEre_CAF1 13027 120 + 1
AGAUCCUGGGCAGCUCACUUCUAACACUGGAGUCGUCACUGGAAACCCAUUAAGUGGUAAGUGCUAGGAACGUAAAAAUAUUUAACAACCCGUGGUGUUUGUCAAACACAUAAGCUGCCA
........(((((((.........(((.((...(((..((((....((((...))))......))))..)))((((....))))....)).)))(((((.....)))))...))))))). ( -30.50)
>DroYak_CAF1 24500 120 + 1
AGAUUCUGGGCAGUUCACUUCUAACGCUGGAGUCAUCACUGGAAACCCAUUAACUGGUAAGUGCUAAAAACGUAAAAAUAUUUAACAGCCCGUGGUAUUUGUCAAACAUUUAAGCUGCCA
........(((((((.(((((.......)))))......(((....))).....((..((((((((......((((....))))........))))))))..))........))))))). ( -24.14)
>consensus
AGAUUCUGGGCAGCUCACUUCUAAG____________ACUGGAAACCCAUUAAGUGGUAAGUGCUAAAAACGUAAAAAUAUUUAACAACCCGUGGUAUUUGUCAAACAUUUAAGCUGCCA
........(((((((........................(((....))).....((..((((((((......((((....))))........))))))))..))........))))))). (-23.58 = -23.10 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,659,233 – 17,659,341
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.00
Mean single sequence MFE -30.94
Consensus MFE -24.35
Energy contribution -25.03
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -2.14
Structure conservation index 0.79
SVM decision value 1.31
SVM RNA-class probability 0.940489
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17659233 108 - 20766785
UGGCAGCUUAAAUGUUUGACAAAUACCACGGGUUGUUAAAUAUUUUUACGUUUUUAGCACUUACCACUUAAUGGGUUCCCAGU------------CUUAGAAGUGAGCUGCCCAGAAUCU
.(((((((.(((((((((((((...(....).)))))))))))))............(((((.........(((....)))..------------.....))))))))))))........ ( -31.19)
>DroSec_CAF1 12741 108 - 1
UGGCAGCUUAAAUGUUUGACAAAUGCCACGGGUUGUUAAAUUUUUUUACGUUUUUAGCACUUACCACUUAAUGGGUUUCCAGU------------CUUAGAAGUGAGCUGCCCAGAAUCU
.(((((((((..(.(..(((..........((((((((((............)))))))...)))......(((....)))))------------)..).)..)))))))))........ ( -27.30)
>DroSim_CAF1 18706 108 - 1
UGGCAGCUUAAAUGUUUGACAAAUACCACGGGUUGUUAAAUAUUUUUACGUUUUUAGCACUUACCACUUAAUGGGUUUCCAGU------------CUUAGAAGUGAGCUGCCCAGAAUCU
.(((((((((((((((((((((...(....).))))))))))))......(((((((.(((.(((.(.....))))....)))------------.))))))))))))))))........ ( -30.70)
>DroEre_CAF1 13027 120 - 1
UGGCAGCUUAUGUGUUUGACAAACACCACGGGUUGUUAAAUAUUUUUACGUUCCUAGCACUUACCACUUAAUGGGUUUCCAGUGACGACUCCAGUGUUAGAAGUGAGCUGCCCAGGAUCU
.(((((((((((((((((((((...(....).)))))))))))..........((((((((..(((.....)))(((......)))......))))))))..))))))))))........ ( -37.70)
>DroYak_CAF1 24500 120 - 1
UGGCAGCUUAAAUGUUUGACAAAUACCACGGGCUGUUAAAUAUUUUUACGUUUUUAGCACUUACCAGUUAAUGGGUUUCCAGUGAUGACUCCAGCGUUAGAAGUGAACUGCCCAGAAUCU
.(((((...((((((((((((....(....)..))))))))))))...((((((((((.((....(((((.(((....)))....)))))..)).))))))))))..)))))........ ( -27.80)
>consensus
UGGCAGCUUAAAUGUUUGACAAAUACCACGGGUUGUUAAAUAUUUUUACGUUUUUAGCACUUACCACUUAAUGGGUUUCCAGU____________CUUAGAAGUGAGCUGCCCAGAAUCU
.(((((((((((((((((((((...(....).))))))))))))......(((((((..............(((....)))...............))))))))))))))))........ (-24.35 = -25.03 +   0.68)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:20 2006