Locus 603

Sequence ID 2L_DroMel_CAF1
Location 1,814,271 – 1,814,377
Length 106
Max. P 0.992572
window990 window991

overview

Window 0

Location 1,814,271 – 1,814,377
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 72.32
Mean single sequence MFE -23.65
Consensus MFE -11.46
Energy contribution -11.15
Covariance contribution -0.31
Combinations/Pair 1.21
Mean z-score -2.19
Structure conservation index 0.48
SVM decision value 0.90
SVM RNA-class probability 0.876834
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1814271 106 + 22407834
AAGAAAGCUACUA---AGUAGGAAGUGAUUGUGAGGGGUAAUAAAACCAAGGGAGUGGAAA--ACUCCGAAGAAUAAUGUGCAUUCAUUUGUAGCCAGGA---CUCAG------GAGAAA
.......((((..---.)))).......((.((((.(((.(((((......(((((.....--)))))...((((.......)))).))))).)))....---)))).------)).... ( -21.70)
>DroSim_CAF1 11929 106 + 1
AAGAAAGCUACUA---AGUAGGAAGUGUGCGUGAGGGGUAAUAAAACCAAGGGAGUGGAAA--ACUCCGAAGAAUAAUGUGCAUUCAUUUGUAGCCAAAA---GUCAG------GAGAAA
......(((((.(---(((.((..(((..(((....(((......)))...(((((.....--)))))........)))..)))))))))))))).....---.....------...... ( -24.10)
>DroPer_CAF1 26332 108 + 1
AGGAAAGCAACUCAAAAGUGGAAG------GACAGGAGAGAGAAAUCUGAGAAAAGAAUAAGCUCUCCUAAGAGUGAUGUGCAUUCAUUUGUACCCAGGAGACCUCUG------GAGAAA
..(((.(((((((....((.....------.))(((((((.....(((......))).....)))))))..))))....))).)))........(((((.....))))------)..... ( -26.80)
>DroEre_CAF1 22779 101 + 1
AAGAAAGCUACUA---AGUAGAAG----------GGGGUAAUAAGACCAAGGGAGUGGAAA--ACUCCCAAGAAUAAUGUGCAUUCAUUUGCAGCCAGAA---CUCAGAACCAGGAG-AA
.......((((..---.))))..(----------(.(((......)))..((((((.....--))))))..........((((......)))).))....---(((........)))-.. ( -22.00)
>consensus
AAGAAAGCUACUA___AGUAGAAA______GUGAGGGGUAAUAAAACCAAGGGAGUGGAAA__ACUCCGAAGAAUAAUGUGCAUUCAUUUGUAGCCAGAA___CUCAG______GAGAAA
.......(((((....))))).............(((((......)))...(((((.......)))))...........((((......)))).))........................ (-11.46 = -11.15 +  -0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 1,814,271 – 1,814,377
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 72.32
Mean single sequence MFE -19.56
Consensus MFE -11.66
Energy contribution -10.97
Covariance contribution -0.69
Combinations/Pair 1.37
Mean z-score -2.24
Structure conservation index 0.60
SVM decision value 2.34
SVM RNA-class probability 0.992572
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1814271 106 - 22407834
UUUCUC------CUGAG---UCCUGGCUACAAAUGAAUGCACAUUAUUCUUCGGAGU--UUUCCACUCCCUUGGUUUUAUUACCCCUCACAAUCACUUCCUACU---UAGUAGCUUUCUU
......------..(((---....((((((....(((((.....)))))...(((((--.....)))))...(((......)))....................---..))))))..))) ( -17.30)
>DroSim_CAF1 11929 106 - 1
UUUCUC------CUGAC---UUUUGGCUACAAAUGAAUGCACAUUAUUCUUCGGAGU--UUUCCACUCCCUUGGUUUUAUUACCCCUCACGCACACUUCCUACU---UAGUAGCUUUCUU
......------.....---....((((((....(((((.....)))))...(((((--.....)))))...(((......)))....................---..))))))..... ( -16.30)
>DroPer_CAF1 26332 108 - 1
UUUCUC------CAGAGGUCUCCUGGGUACAAAUGAAUGCACAUCACUCUUAGGAGAGCUUAUUCUUUUCUCAGAUUUCUCUCUCCUGUC------CUUCCACUUUUGAGUUGCUUUCCU
....((------(((.......))))).......(((.(((....((((.((((((((.....(((......))).....))))))))..------...........))))))).))).. ( -22.34)
>DroEre_CAF1 22779 101 - 1
UU-CUCCUGGUUCUGAG---UUCUGGCUGCAAAUGAAUGCACAUUAUUCUUGGGAGU--UUUCCACUCCCUUGGUCUUAUUACCCC----------CUUCUACU---UAGUAGCUUUCUU
..-.....(((((((((---(...((.((((......))))......((..((((((--.....))))))..))...........)----------)....)))---))).))))..... ( -22.30)
>consensus
UUUCUC______CUGAG___UCCUGGCUACAAAUGAAUGCACAUUAUUCUUCGGAGU__UUUCCACUCCCUUGGUUUUAUUACCCCUCAC______CUCCUACU___UAGUAGCUUUCUU
........................((((((....(((((.....)))))...(((((.......)))))...(((......))).........................))))))..... (-11.66 = -10.97 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:45 2006