Locus 6191

Sequence ID 2R_DroMel_CAF1
Location 19,486,166 – 19,486,298
Length 132
Max. P 0.989235
window9912 window9913 window9914

overview

Window 2

Location 19,486,166 – 19,486,270
Length 104
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.91
Mean single sequence MFE -25.98
Consensus MFE -22.75
Energy contribution -23.00
Covariance contribution 0.25
Combinations/Pair 1.19
Mean z-score -1.24
Structure conservation index 0.88
SVM decision value 0.09
SVM RNA-class probability 0.576213
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19486166 104 + 20766785
GAUUGAAAUAACUC--------UUUUAUGGAAAAUAAGGAAGGCGUAAGGCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAA--------
............((--------(.....)))......(((.((((((((.....))))))))..(((.............)))..)))..(((((((((...))))))))).-------- ( -26.72)
>DroSec_CAF1 2742 104 + 1
AAUUGUAAUAACUC--------UUUUAUGGAAAAUAGGGAAGGCAUAAGUCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAA--------
..(((((....(((--------(.((......)).))))..((((((((.....))))))))..)))))...........((......))(((((((((...))))))))).-------- ( -29.40)
>DroSim_CAF1 3026 104 + 1
AAUUGUAAUAACUC--------UUUUAUGGAAAAUAAGGAAGGCAUAAGUCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAA--------
..(..(((......--------..)))..).......(((.((((((((.....))))))))..(((.............)))..)))..(((((((((...))))))))).-------- ( -28.92)
>DroEre_CAF1 2925 118 + 1
GAUUGUAAUAACUUGAAAAUUGUUAAAUGAAAACCAAGGAAGGCAUGAGCUGCUCUUGUACCGCUGC--CCGCACUAACCGCAAGUCCGCUCCUGACCCAUCGAGUCUGGCCGCACACAC
...(((....(((((......((((.........(((((..(((....)))..)))))....((...--..))..))))..)))))..((.((.(((.......))).))..)))))... ( -18.90)
>consensus
AAUUGUAAUAACUC________UUUUAUGGAAAAUAAGGAAGGCAUAAGUCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAA________
.....................................(((.((((((((.....)))))))).................(....))))..(((((((((...)))))))))......... (-22.75 = -23.00 +   0.25)

alignment

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secondary structure

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Window 3

Location 19,486,198 – 19,486,298
Length 100
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 95.71
Mean single sequence MFE -31.90
Consensus MFE -30.39
Energy contribution -30.50
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.37
Structure conservation index 0.95
SVM decision value 2.16
SVM RNA-class probability 0.989235
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19486198 100 + 20766785
AGGCGUAAGGCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAA-ACUCUCGCAAAAACCUGCGCUCUUUCGG
.((((((((.....))))))))................(((.(((...(((((((((((...))))))))).-......(((......))))).))).))) ( -31.30)
>DroSec_CAF1 2774 101 + 1
AGGCAUAAGUCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAACACUCUCGCAGAAACCUGCGCUCUUUCUC
.((((((((.....))))))))...((....((......(....)...(.(((((((((...))))))))).)....))((((....))))))........ ( -32.20)
>DroSim_CAF1 3058 101 + 1
AGGCAUAAGUCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAACACUCUCGCAGAAACCUGCGCUCUUUCCC
.((((((((.....))))))))...((....((......(....)...(.(((((((((...))))))))).)....))((((....))))))........ ( -32.20)
>consensus
AGGCAUAAGUCACUUUUAUGCCAAUGCAACUGAACUAACCGCAAGUCCGCUCCUGACUCGUCGAGUCAGGAACACUCUCGCAGAAACCUGCGCUCUUUCCC
.((((((((.....))))))))...((....((.......((......))(((((((((...)))))))))......))((((....))))))........ (-30.39 = -30.50 +   0.11)

alignment

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secondary structure

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Window 4

Location 19,486,198 – 19,486,298
Length 100
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 95.71
Mean single sequence MFE -40.40
Consensus MFE -38.23
Energy contribution -38.90
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.45
Structure conservation index 0.95
SVM decision value 2.11
SVM RNA-class probability 0.988122
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19486198 100 - 20766785
CCGAAAGAGCGCAGGUUUUUGCGAGAGU-UUCCUGACUCGACGAGUCAGGAGCGGACUUGCGGUUAGUUCAGUUGCAUUGGCAUAAAAGUGCCUUACGCCU
..(((.((.(((((((((..((....))-((((((((((...)))))))))).))))))))).))..)))....((...(((((....)))))....)).. ( -36.70)
>DroSec_CAF1 2774 101 - 1
GAGAAAGAGCGCAGGUUUCUGCGAGAGUGUUCCUGACUCGACGAGUCAGGAGCGGACUUGCGGUUAGUUCAGUUGCAUUGGCAUAAAAGUGACUUAUGCCU
..(((.((.(((((((((..((....))(((((((((((...)))))))))))))))))))).))..))).........(((((((.......))))))). ( -41.80)
>DroSim_CAF1 3058 101 - 1
GGGAAAGAGCGCAGGUUUCUGCGAGAGUGUUCCUGACUCGACGAGUCAGGAGCGGACUUGCGGUUAGUUCAGUUGCAUUGGCAUAAAAGUGACUUAUGCCU
.(((..((.(((((((((..((....))(((((((((((...)))))))))))))))))))).))..))).........(((((((.......))))))). ( -42.70)
>consensus
GAGAAAGAGCGCAGGUUUCUGCGAGAGUGUUCCUGACUCGACGAGUCAGGAGCGGACUUGCGGUUAGUUCAGUUGCAUUGGCAUAAAAGUGACUUAUGCCU
..(((.((.(((((((((..((....))(((((((((((...)))))))))))))))))))).))..))).........(((((((.......))))))). (-38.23 = -38.90 +   0.67)

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 12:05:05 2006