Locus 1746

Sequence ID 3L_DroMel_CAF1
Location 5,042,067 – 5,042,184
Length 117
Max. P 0.706653
window2695 window2696

overview

Window 5

Location 5,042,067 – 5,042,184
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.15
Mean single sequence MFE -20.80
Consensus MFE -20.80
Energy contribution -20.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.10
Structure conservation index 1.00
SVM decision value 0.02
SVM RNA-class probability 0.543111
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5042067 117 + 23771897
CUGUAAAUUGGCCAAAAGCCGCUUAUAAAGGUAAACGCAGGGCAACACACUUUCUGGGCCCAAAAGUAGCACACAAAGUGGCGUAA---AAUAAAAAUGAAAAACCAGAAACCCCACUUA
.(((((..((((.....)))).)))))..(((..((((.((((....((.....)).))))........(((.....)))))))..---........(....)))).............. ( -20.80)
>DroSec_CAF1 248561 118 + 1
CUGUAAAUUGGCCAAAAGCCGCUUAUAAAGGUAAACGCAGGGCAACACACUUUCUGGGCCCAAAAGUAGCACACAAAGUGGCGUAAA--AAUAAAAAUGAAAAACCAGAAACCCCACUUA
.(((((..((((.....)))).)))))..(((..((((.((((....((.....)).))))........(((.....)))))))...--........(....)))).............. ( -20.80)
>DroSim_CAF1 269422 118 + 1
CUGUAAAUUGGCCAAAAGCCGCUUAUAAAGGUAAACGCAGGGCAACACACUUUCUGGGCCCAAAAGUAGCACACAAAGUGGCGUAAA--AAUAAAAAUGAAAAACCAGAAACCCCACUUA
.(((((..((((.....)))).)))))..(((..((((.((((....((.....)).))))........(((.....)))))))...--........(....)))).............. ( -20.80)
>DroEre_CAF1 252000 119 + 1
CUGUAAAUUGGCCAAAAGCCGCUUAUAAAGGUAAACGCAGGGCAACACACUUUCUGGGCCCAAAAGUAGCACACAAAGUGGCGUAAA-AAAUAAAAAUGAAAAACCAGAAACCCCAUUUA
.(((((..((((.....)))).)))))..(((..((((.((((....((.....)).))))........(((.....)))))))...-.........(....)))).............. ( -20.80)
>DroYak_CAF1 258386 120 + 1
CUGUAAAUUGGCCAAAAGCCGCUUAUAAAGGUAAACGCAGGGCAACACACUUUCUGGGCCCAAAAGUAGCACACAAAGUGGCGUAAAAAAAUAAAAAUGAAAAACCAAAAACCCCACUUA
.(((((..((((.....)))).)))))..(((..((((.((((....((.....)).))))........(((.....))))))).............(....)))).............. ( -20.80)
>consensus
CUGUAAAUUGGCCAAAAGCCGCUUAUAAAGGUAAACGCAGGGCAACACACUUUCUGGGCCCAAAAGUAGCACACAAAGUGGCGUAAA__AAUAAAAAUGAAAAACCAGAAACCCCACUUA
.(((((..((((.....)))).)))))..(((..((((.((((....((.....)).))))........(((.....))))))).............((......))...)))....... (-20.80 = -20.80 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,042,067 – 5,042,184
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.15
Mean single sequence MFE -28.56
Consensus MFE -28.04
Energy contribution -28.24
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.21
Structure conservation index 0.98
SVM decision value 0.37
SVM RNA-class probability 0.706653
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5042067 117 - 23771897
UAAGUGGGGUUUCUGGUUUUUCAUUUUUAUU---UUACGCCACUUUGUGUGCUACUUUUGGGCCCAGAAAGUGUGUUGCCCUGCGUUUACCUUUAUAAGCGGCUUUUGGCCAAUUUACAG
...(..((((...(((....)))........---..((((.(((((.((.(((.......))).)).))))))))).))))..)(((((......)))))(((.....)))......... ( -29.30)
>DroSec_CAF1 248561 118 - 1
UAAGUGGGGUUUCUGGUUUUUCAUUUUUAUU--UUUACGCCACUUUGUGUGCUACUUUUGGGCCCAGAAAGUGUGUUGCCCUGCGUUUACCUUUAUAAGCGGCUUUUGGCCAAUUUACAG
...(..((((...(((....)))........--...((((.(((((.((.(((.......))).)).))))))))).))))..)(((((......)))))(((.....)))......... ( -29.30)
>DroSim_CAF1 269422 118 - 1
UAAGUGGGGUUUCUGGUUUUUCAUUUUUAUU--UUUACGCCACUUUGUGUGCUACUUUUGGGCCCAGAAAGUGUGUUGCCCUGCGUUUACCUUUAUAAGCGGCUUUUGGCCAAUUUACAG
...(..((((...(((....)))........--...((((.(((((.((.(((.......))).)).))))))))).))))..)(((((......)))))(((.....)))......... ( -29.30)
>DroEre_CAF1 252000 119 - 1
UAAAUGGGGUUUCUGGUUUUUCAUUUUUAUUU-UUUACGCCACUUUGUGUGCUACUUUUGGGCCCAGAAAGUGUGUUGCCCUGCGUUUACCUUUAUAAGCGGCUUUUGGCCAAUUUACAG
.....(((((...(((....))).........-...((((.(((((.((.(((.......))).)).))))))))).)))))..(((((......)))))(((.....)))......... ( -25.50)
>DroYak_CAF1 258386 120 - 1
UAAGUGGGGUUUUUGGUUUUUCAUUUUUAUUUUUUUACGCCACUUUGUGUGCUACUUUUGGGCCCAGAAAGUGUGUUGCCCUGCGUUUACCUUUAUAAGCGGCUUUUGGCCAAUUUACAG
...(..((((...(((....))).............((((.(((((.((.(((.......))).)).))))))))).))))..)(((((......)))))(((.....)))......... ( -29.40)
>consensus
UAAGUGGGGUUUCUGGUUUUUCAUUUUUAUU__UUUACGCCACUUUGUGUGCUACUUUUGGGCCCAGAAAGUGUGUUGCCCUGCGUUUACCUUUAUAAGCGGCUUUUGGCCAAUUUACAG
...(((((((...(((....))).............((((.(((((.((.(((.......))).)).))))))))).)))))))(((((......)))))(((.....)))......... (-28.04 = -28.24 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:11 2006