Locus 2345

Sequence ID X_DroMel_CAF1
Location 6,270,379 – 6,270,495
Length 116
Max. P 0.995334
window3816 window3817

overview

Window 6

Location 6,270,379 – 6,270,495
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 78.34
Mean single sequence MFE -21.23
Consensus MFE -14.29
Energy contribution -14.60
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -1.83
Structure conservation index 0.67
SVM decision value 0.66
SVM RNA-class probability 0.814813
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6270379 116 + 22224390
----UGAACUACGCAUUACGUUAAACCGGUUUCGAAUGAAACCGAAAUGCAAAUCAGUUCUGCAUUAUUUACUAAGUAGUUCUUAUUUAACUGCGACGCAAUUCAACAACGCAAUUCAAC
----.(((((((..............(((((((....))))))).((((((.........)))))).........))))))).........((((..(........)..))))....... ( -26.00)
>DroSec_CAF1 12603 103 + 1
----UGAACUACGCAUUACGUUAAAUCAGUUUCGAAUGAAACCGAAAUGCAAAACAGUUCUGCAUUAUUUACCAAGUAGUUCUUACUUAACUGCGACGCAAUU-------------CAAC
----.(((((((.............((.(((((....))))).))((((((.........)))))).........))))))).........(((...)))...-------------.... ( -18.50)
>DroEre_CAF1 1648 104 + 1
UUCUUGAACUACGCAUUACGUUAAGCCA-UUUCGAAUGAAACCGAAAUGCAAAACAGUUCUGCAUUGUUUACCAAGUAGUUCCUAUGUAACUACGAC--AAUU-------------CUUC
.....((((((((((..(((((..((.(-(((((........))))))))..))).))..))).(((.....))))))))))...............--....-------------.... ( -21.30)
>DroYak_CAF1 9821 104 + 1
UUUAUGAAUUACGCAUUACUGUAAACCA-UUUCGAAUGAAAAGGAAAUGCAAAAUAGGAUUGCAUUACUUACUAAGUAGUUCGCAUGUAACUACGAC--AAUU-------------CGUC
...(((((((..(((...((((....((-((((..........))))))....))))...)))............((((((.......))))))...--))))-------------))). ( -19.10)
>consensus
____UGAACUACGCAUUACGUUAAACCA_UUUCGAAUGAAACCGAAAUGCAAAACAGUUCUGCAUUAUUUACCAAGUAGUUCUUAUGUAACUACGAC__AAUU_____________CAAC
.....(((((((..............(.(((((....))))).).((((((.........)))))).........)))))))...................................... (-14.29 = -14.60 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 6,270,379 – 6,270,495
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 78.34
Mean single sequence MFE -28.55
Consensus MFE -19.60
Energy contribution -20.35
Covariance contribution 0.75
Combinations/Pair 1.13
Mean z-score -2.57
Structure conservation index 0.69
SVM decision value 2.57
SVM RNA-class probability 0.995334
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6270379 116 - 22224390
GUUGAAUUGCGUUGUUGAAUUGCGUCGCAGUUAAAUAAGAACUACUUAGUAAAUAAUGCAGAACUGAUUUGCAUUUCGGUUUCAUUCGAAACCGGUUUAACGUAAUGCGUAGUUCA----
(((.(((((((.(((......))).))))))).)))..(((((((.........((((((((.....))))))))((((((((....)))))))).............))))))).---- ( -35.50)
>DroSec_CAF1 12603 103 - 1
GUUG-------------AAUUGCGUCGCAGUUAAGUAAGAACUACUUGGUAAAUAAUGCAGAACUGUUUUGCAUUUCGGUUUCAUUCGAAACUGAUUUAACGUAAUGCGUAGUUCA----
..((-------------((((((((....(((((((..................((((((((.....)))))))).(((((((....)))))))))))))).....))))))))))---- ( -29.30)
>DroEre_CAF1 1648 104 - 1
GAAG-------------AAUU--GUCGUAGUUACAUAGGAACUACUUGGUAAACAAUGCAGAACUGUUUUGCAUUUCGGUUUCAUUCGAAA-UGGCUUAACGUAAUGCGUAGUUCAAGAA
....-------------....--...............((((((((((.....))).(((..((.(((..(((((((((......))))))-).))..)))))..))))))))))..... ( -25.60)
>DroYak_CAF1 9821 104 - 1
GACG-------------AAUU--GUCGUAGUUACAUGCGAACUACUUAGUAAGUAAUGCAAUCCUAUUUUGCAUUUCCUUUUCAUUCGAAA-UGGUUUACAGUAAUGCGUAAUUCAUAAA
...(-------------((((--(.((((.((((.((..(((((........(.(((((((.......))))))).)..((((....))))-)))))..))))))))))))))))..... ( -23.80)
>consensus
GAUG_____________AAUU__GUCGCAGUUAAAUAAGAACUACUUAGUAAAUAAUGCAGAACUGUUUUGCAUUUCGGUUUCAUUCGAAA_UGGUUUAACGUAAUGCGUAGUUCA____
......................................(((((((.........((((((((.....))))))))((((((((....)))))))).............)))))))..... (-19.60 = -20.35 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:18 2006