Locus 6859

Sequence ID 2L_DroMel_CAF1
Location 19,186,787 – 19,186,926
Length 139
Max. P 0.989954
window10934 window10935

overview

Window 4

Location 19,186,787 – 19,186,888
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.35
Mean single sequence MFE -26.00
Consensus MFE -21.72
Energy contribution -21.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.84
SVM decision value 2.19
SVM RNA-class probability 0.989954
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19186787 101 - 22407834
-----------ACAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGAACGAACGCACACAAAGUGGCAAAUAAUUGCCCAGUUAAUUGAAAAGCCAAAAGGCAG--------
-----------..........((((.(((((((((((....))))))).............((.(((...))))).......)))).)))).........(((....)))..-------- ( -21.00)
>DroSec_CAF1 6794 112 - 1
CAAACGAGGAGCCAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGACGAACACACACAAAGUGGCAAAUAAUUGCCCAGUUAAUUGAAAAGCCAAAAGGCAG--------
....(((..(((.......(((((((....(((((((....))))))))))))))...............(.(((((....)))))).)))..)))....(((....)))..-------- ( -26.50)
>DroSim_CAF1 8053 112 - 1
CAAACGAGGAGCCAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGACGAACGCACACAAAGUGGCAAAUAAUUGCCCAGUUAAUUGAAAAGCCAAAAGGCAG--------
....(((..(((.......(((((((....(((((((....))))))))))))))...............(.(((((....)))))).)))..)))....(((....)))..-------- ( -26.50)
>DroEre_CAF1 7005 111 - 1
CAAACGAGA-----AAAUCCCGGCUUGGCAUAAAUCAAAUCUGAUUUAAAGUCGGAC----GCACACAAAGUGGCAAAUAAUUGCCAAGUUAAUUGAAAAGCCAAAAGGCGACUGGAGUU
.........-----...(((.(((((((((.........((((((.....)))))).----((.(((...))))).......))))))))).........(((....)))....)))... ( -28.60)
>DroYak_CAF1 7969 111 - 1
CAAACAAGG-----AAAUUCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGAC----GCACACAAAGUGGCAAAUAAUUGCCAAGUUAAUUGAAAAGCCAAAAGGCGACUUAAGUU
....(((((-----.....))((((((((((((((((....))))))).........----((.(((...))))).......)))))))))..)))....(((....))).......... ( -27.40)
>consensus
CAAACGAGG___CAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGACGAACGCACACAAAGUGGCAAAUAAUUGCCCAGUUAAUUGAAAAGCCAAAAGGCAG________
...................(((((((....(((((((....)))))))))))))).................(((((....)))))..............(((....))).......... (-21.72 = -21.92 +   0.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,186,819 – 19,186,926
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.26
Mean single sequence MFE -28.33
Consensus MFE -20.30
Energy contribution -22.30
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.72
SVM decision value 0.65
SVM RNA-class probability 0.811872
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19186819 107 - 22407834
UAAAUAAUCCCAGCAAGUCGCA-UUCGUUUGCCCAGGAG------------ACAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGAACGAACGCACACAAAGUGGCAAAUA
............((.....((.-((((((((((..(((.------------......))).)))..(((.(((((((....)))))))..)))))))))).)).(((...)))))..... ( -25.60)
>DroSec_CAF1 6826 119 - 1
UAAAUAAUCCCAGCUAGUCGCA-UUCGUUUGCCCAGGAGCCAAACGAGGAGCCAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGACGAACACACACAAAGUGGCAAAUA
...................((.-...(((((.((....(((((.((.(((.......)))))..))))).(((((((....))))))).....)).))))).(((.....)))))..... ( -29.60)
>DroSim_CAF1 8085 119 - 1
UAAAUAAUCCCAGCUAGUCGCA-UUCGUUUGCCCAGGAGCCAAACGAGGAGCCAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGACGAACGCACACAAAGUGGCAAAUA
............((.....((.-(((((((((......(((((.((.(((.......)))))..))))).(((((((....)))))))..).)))))))).)).(((...)))))..... ( -30.70)
>DroEre_CAF1 7045 111 - 1
UAAAUAAUCCCAGGAAGUCGCAAUUCGUUUGCCCAAGAGCCAAACGAGA-----AAAUCCCGGCUUGGCAUAAAUCAAAUCUGAUUUAAAGUCGGAC----GCACACAAAGUGGCAAAUA
.......((....)).(((((..(((((((((......).)))))))).-----.....(((((((....(((((((....))))))))))))))..----.........)))))..... ( -27.80)
>DroYak_CAF1 8009 111 - 1
UAAAUAAUCCCAGCAAGUCGCAUUUCGUUUGCCCAGGAGCCAAACAAGG-----AAAUUCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGAC----GCACACAAAGUGGCAAAUA
.......(((..(((((.((.....)))))))...)))((((.......-----....((((((((....(((((((....))))))))))))))).----..........))))..... ( -27.95)
>consensus
UAAAUAAUCCCAGCAAGUCGCA_UUCGUUUGCCCAGGAGCCAAACGAGG___CAAAAUCCCGGCUUGGCAUAAAUCAAAUUUGAUUUAAAGUCGGACGAACGCACACAAAGUGGCAAAUA
................(((((..((((((((.(.....).))))))))...........(((((((....(((((((....))))))))))))))...............)))))..... (-20.30 = -22.30 +   2.00)

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 12:21:28 2006