Locus 1107

Sequence ID 3L_DroMel_CAF1
Location 3,235,699 – 3,235,843
Length 144
Max. P 0.885737
window1712 window1713

overview

Window 2

Location 3,235,699 – 3,235,810
Length 111
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -20.98
Consensus MFE -14.51
Energy contribution -15.79
Covariance contribution 1.28
Combinations/Pair 1.15
Mean z-score -1.82
Structure conservation index 0.69
SVM decision value 0.94
SVM RNA-class probability 0.885737
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3235699 111 + 23771897
UGUAAAAGCUUGAACAGCUUUUCUAAGAAACUUUCAUACACGAUCAUUUAUCGAACUGCUUUAAGUAAA-----GUUAAGUAAAGUAAAUGUAAGAUACUUUACAUAGACAAAAAA
....((((((.....))))))((((...((((((......((((.....)))).(((......))))))-----)))..((((((((.........)))))))).))))....... ( -17.90)
>DroSec_CAF1 14667 116 + 1
UGUAAAAGCUUAAAAAGCUUUUCUAGGAAACUUUCAUACACGAUCAUUUAUCGAACUGCUUUAAGUAAAGUAAGGUUAAGUAAGGUAUAUGUAAAAUACUUUACAUAUACAAAUAA
((((((((((.....))))))...((....))....))))......(((((..(((((((((....)))))..))))..)))))(((((((((((....)))))))))))...... ( -24.50)
>DroSim_CAF1 15198 116 + 1
UGUAAAAGCUUAAAAAGCUUUUCUAGGGAACUUUCAUACACGAUCAUUUUUCGAACUGCUUUAAGUAAGGUAAGGUUAAGUAAAGUCGAUGUAAAAUACUUUACAUAGACAAAUAA
...(((((((.....)))))))..((....))....(((.(((.......)))(((((((((....)))))..))))..)))..(((.(((((((....))))))).)))...... ( -19.80)
>DroEre_CAF1 14786 101 + 1
UUAAAAAGCAAGGAGAGCUUUUUUAAACUACAUC---ACACGAUCAUUUAUCGAACUGCUUUACGA--A-----CUUAAGUAAAGUCUAUGUAAAAUACA-GACGUAGAC----UA
..(((((((.......)))))))....((((.((---...((((.....))))....(((((((..--.-----.....)))))))..............-)).))))..----.. ( -18.50)
>DroYak_CAF1 15059 109 + 1
UGAAAAAGCUUAAAGAGCUUUUCUAACCUACAUCAGCACACGAUCAUUUAUCGAACUGCUUUACGA--A-----UUUAAGUUAAGUCUAUGUAAAAUACCUUGCGUAGACAGCUUA
...((((((((...))))))))............((((..((((.....))))...))))......--.-----..((((((..((((((((((......)))))))))))))))) ( -24.20)
>consensus
UGUAAAAGCUUAAAAAGCUUUUCUAAGAAACUUUCAUACACGAUCAUUUAUCGAACUGCUUUAAGUAAA_____GUUAAGUAAAGUCUAUGUAAAAUACUUUACAUAGACAAAUAA
...(((((((.....)))))))..................((((.....))))...(((((................)))))..(((((((((((....)))))))))))...... (-14.51 = -15.79 +   1.28)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,235,735 – 3,235,843
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.99
Mean single sequence MFE -20.16
Consensus MFE -10.35
Energy contribution -11.43
Covariance contribution 1.08
Combinations/Pair 1.20
Mean z-score -1.83
Structure conservation index 0.51
SVM decision value 0.31
SVM RNA-class probability 0.683668
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3235735 108 + 23771897
UACACGAUCAUUUAUCGAACUGCUUUAAGUAAA-----GUUAAGUAAAGUAAAUGUAAGAUACUUUACAUAGACAAAAAAACUACACCGUGGGAAACAUAAAAUUCUUUAAAU-------
..((((....(((((..((((...........)-----)))..)))))((..(((((((....)))))))..)).............))))(....)................------- ( -16.10)
>DroSec_CAF1 14703 113 + 1
UACACGAUCAUUUAUCGAACUGCUUUAAGUAAAGUAAGGUUAAGUAAGGUAUAUGUAAAAUACUUUACAUAUACAAAUAAACUAUAGCGUGGGAAAGAUACACUUUCUUAAAU-------
..((((....(((((..(((((((((....)))))..))))..)))))(((((((((((....))))))))))).............))))((((((.....)))))).....------- ( -26.30)
>DroSim_CAF1 15234 112 + 1
UACACGAUCAUUUUUCGAACUGCUUUAAGUAAGGUAAGGUUAAGUAAAGUCGAUGUAAAAUACUUUACAUAGACAAAUAAACUAUAGCGUG-GAAAGAUACAAUUUCUUAAAU-------
..((((...........(((((((((....)))))..)))).......(((.(((((((....))))))).))).............))))-..((((.......))))....------- ( -18.10)
>DroEre_CAF1 14820 100 + 1
-ACACGAUCAUUUAUCGAACUGCUUUACGA--A-----CUUAAGUAAAGUCUAUGUAAAAUACA-GACGUAGAC----UAACUCUACAUUGGGAAACAUACAUUUAUUUAAAU-------
-...((((.....)))).............--.-----.(((((((((((((((((........-.))))))))----)..(((......)))..........))))))))..------- ( -17.10)
>DroYak_CAF1 15095 111 + 1
CACACGAUCAUUUAUCGAACUGCUUUACGA--A-----UUUAAGUUAAGUCUAUGUAAAAUACCUUGCGUAGACAGCUUAACUUUACAU-GGGAAAGAAAUUUUU-UUUAGAUAAAUAAA
.........(((((((............((--(-----.(((((((..((((((((((......))))))))))))))))).)))....-((((((....)))))-)...)))))))... ( -23.20)
>consensus
UACACGAUCAUUUAUCGAACUGCUUUAAGUAAA_____GUUAAGUAAAGUCUAUGUAAAAUACUUUACAUAGACAAAUAAACUAUACCGUGGGAAAGAUACAAUUUUUUAAAU_______
....((((.....))))...(((((................)))))..(((((((((((....))))))))))).............................................. (-10.35 = -11.43 +   1.08)

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 09:59:12 2006