Locus 7751

Sequence ID 3L_DroMel_CAF1
Location 20,669,592 – 20,669,736
Length 144
Max. P 0.986378
window12620 window12621 window12622 window12623

overview

Window 0

Location 20,669,592 – 20,669,701
Length 109
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 89.21
Mean single sequence MFE -33.17
Consensus MFE -27.97
Energy contribution -27.53
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -3.19
Structure conservation index 0.84
SVM decision value 1.46
SVM RNA-class probability 0.956129
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20669592 109 + 23771897
UACCUGAGAGAGUAAUGUGUGUGAGUAAUGCAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUAUUUCCAGU
..(((.((((...((((((((((((...((((.....)))).............((((....)))))))))..)))))))..)))).)))....((((.......)))) ( -36.50)
>DroSec_CAF1 41531 97 + 1
UACCUGC------------UGUGAGCAAUGCAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUGUAUCCAGC
.....((------------(((...((..((((((.((((((.(((........((((....)))).))).))))))))))))..))...)).))).((((....)))) ( -31.50)
>DroSim_CAF1 47432 97 + 1
UACCUGC------------UGUGAGCAAUGCAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUGUAUCCAGC
.....((------------(((...((..((((((.((((((.(((........((((....)))).))).))))))))))))..))...)).))).((((....)))) ( -31.50)
>consensus
UACCUGC____________UGUGAGCAAUGCAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUGUAUCCAGC
...................(((...((..((((((.((((((.(((........((((....)))).))).))))))))))))..))...))).((((.......)))) (-27.97 = -27.53 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,669,592 – 20,669,701
Length 109
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 89.21
Mean single sequence MFE -31.01
Consensus MFE -27.93
Energy contribution -28.04
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.94
Structure conservation index 0.90
SVM decision value 1.78
SVM RNA-class probability 0.976759
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20669592 109 - 23771897
ACUGGAAAUAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUGCAUUACUCACACACAUUACUCUCUCAGGUA
.((((..((((....))))..)))).((((((((((((.((((((((....))))).......))).)))))).))))))...............((((......)))) ( -25.21)
>DroSec_CAF1 41531 97 - 1
GCUGGAUACAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUGCAUUGCUCACA------------GCAGGUA
((((....)))).((((((...(((.((((((((((((.((((((((....))))).......))).)))))).)))))).)))......------------)))))). ( -33.91)
>DroSim_CAF1 47432 97 - 1
GCUGGAUACAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUGCAUUGCUCACA------------GCAGGUA
((((....)))).((((((...(((.((((((((((((.((((((((....))))).......))).)))))).)))))).)))......------------)))))). ( -33.91)
>consensus
GCUGGAUACAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUGCAUUGCUCACA____________GCAGGUA
((((....)))).(((((((....))((((((((((((.((((((((....))))).......))).)))))).)))))).......................))))). (-27.93 = -28.04 +   0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,669,622 – 20,669,736
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 97.66
Mean single sequence MFE -36.40
Consensus MFE -33.79
Energy contribution -33.57
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -3.37
Structure conservation index 0.93
SVM decision value 1.76
SVM RNA-class probability 0.975909
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20669622 114 + 23771897
CAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUAUUUCCAGUCAUCGGAAAUUCGAUGAAAGGAAGUUCAGUUUCCC
(((((.((((((.(((........((((....)))).))).)))))))))))......(((..(((((..((((((..(((((((....)))))))..)))))).)))))))). ( -41.30)
>DroSec_CAF1 41549 114 + 1
CAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUGUAUCCAGCCAUCGGAAAUUCGAUGAAAGGAAGUUCAGUUUCCC
(((((.((((((.(((........((((....)))).))).)))))))))))......(((..(((((..(..(((...((((((....))))))...)))..).)))))))). ( -33.50)
>DroSim_CAF1 47450 114 + 1
CAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUGUAUCCAGCCAUCGGAAAUUCGAUGAAAGGAAGUUCAGUUUCCA
(((((.((((((.(((........((((....)))).))).)))))))))))......(((..(((((..(..(((...((((((....))))))...)))..).)))))))). ( -34.40)
>consensus
CAAAUUGUGCAACUGAUAAGAUAAAGCCGAAAGGCUCUCAUUUGCACAUUUGCUCUGAGGACAAGCUGCUGUAUCCAGCCAUCGGAAAUUCGAUGAAAGGAAGUUCAGUUUCCC
(((((.((((((.(((........((((....)))).))).)))))))))))......(((..(((((..(..(((...((((((....))))))...)))..).)))))))). (-33.79 = -33.57 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,669,622 – 20,669,736
Length 114
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 97.66
Mean single sequence MFE -35.18
Consensus MFE -34.70
Energy contribution -34.48
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.82
Structure conservation index 0.99
SVM decision value 2.04
SVM RNA-class probability 0.986378
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20669622 114 - 23771897
GGGAAACUGAACUUCCUUUCAUCGAAUUUCCGAUGACUGGAAAUAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUG
((((..(((...((((..((((((......))))))..))))....)))....)))).....(((((((((((.((((((((....))))).......))).)))))).))))) ( -36.21)
>DroSec_CAF1 41549 114 - 1
GGGAAACUGAACUUCCUUUCAUCGAAUUUCCGAUGGCUGGAUACAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUG
((((..(((....(((..((((((......))))))..))).....)))....)))).....(((((((((((.((((((((....))))).......))).)))))).))))) ( -34.91)
>DroSim_CAF1 47450 114 - 1
UGGAAACUGAACUUCCUUUCAUCGAAUUUCCGAUGGCUGGAUACAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUG
.(((..(((....(((..((((((......))))))..))).....)))....)))......(((((((((((.((((((((....))))).......))).)))))).))))) ( -34.41)
>consensus
GGGAAACUGAACUUCCUUUCAUCGAAUUUCCGAUGGCUGGAUACAGCAGCUUGUCCUCAGAGCAAAUGUGCAAAUGAGAGCCUUUCGGCUUUAUCUUAUCAGUUGCACAAUUUG
.(((..(((....(((..((((((......))))))..))).....)))....)))......(((((((((((.((((((((....))))).......))).)))))).))))) (-34.70 = -34.48 +  -0.22)

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 12:56:03 2006