Locus 883

Sequence ID	X_DroMel_CAF1
Location	2,498,554 – 2,498,649
Length	95
Max. P	0.785807

overview

Window 4

Location	2,498,554 – 2,498,649
Length	95
Sequences	4
Columns	98
Reading direction	forward
Mean pairwise identity	94.10
Mean single sequence MFE	-22.56
Consensus MFE	-18.35
Energy contribution	-18.10
Covariance contribution	-0.25
Combinations/Pair	1.05
Mean z-score	-2.14
Structure conservation index	0.81
SVM decision value	0.57
SVM RNA-class probability	0.785807
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2498554 95 + 22224390
AUUGAGUUGCUGCUUUAUUUGUUAGAUUUAGUGUUCUUGAGUAAUUGAAUUUUAUUACUCAGCUGUUUUGGGCACACGGCUGUUUUUAGC---CCUCG
..((((((...((.......))..))))))((((...((((((((........))))))))(((......)))))))(((((....))))---).... ( -23.00)
>DroSec_CAF1 17182 95 + 1
AUUGAGUCGCUGCUUUAUUUGUUAGAUUUUGUGUUCUUGAGUAAUUGAAUUUUAUUACUCAGCUGUUUUGGGCACACGGCUGUUUUUAGC---CCUCG
...(((((...((.......))..)))))((((((((((((((((........))))))))).......))))))).(((((....))))---).... ( -23.21)
>DroEre_CAF1 17611 92 + 1
AUUGAGUU---GCUUUAUUUGUUAGAUUUUGUGUUCUUGGGUAAUUGAAUUUUAUUACUCAGCUGUUUUGGGCACACGGCUGUUUUUAGC---CCUCG
...(((..---..................((((((((((((((((........))))))))).......))))))).(((((....))))---)))). ( -21.91)
>DroYak_CAF1 17055 95 + 1
AUUGAGUU---GCUUUAUUUGUUAGAUUUUGUGUUCUUGGGUAAUUGAAUUUUAUUACUCAGCUGUUUUGGGCACACGGCUGUUUUUAGCAGUGCUCG
...(((((---(((........(((.(..((((((((((((((((........))))))))).......)))))))..)))).....))))..)))). ( -22.13)
>consensus
AUUGAGUU___GCUUUAUUUGUUAGAUUUUGUGUUCUUGAGUAAUUGAAUUUUAUUACUCAGCUGUUUUGGGCACACGGCUGUUUUUAGC___CCUCG
...(((........................((((...((((((((........))))))))(((......))))))).((((....))))....))). (-18.35 = -18.10 +  -0.25)

alignment

secondary structure

dotplot

Window 5

Location	2,498,554 – 2,498,649
Length	95
Sequences	4
Columns	98
Reading direction	reverse
Mean pairwise identity	94.10
Mean single sequence MFE	-17.85
Consensus MFE	-13.60
Energy contribution	-14.10
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-3.40
Structure conservation index	0.76
SVM decision value	0.39
SVM RNA-class probability	0.716815
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2498554 95 - 22224390
CGAGG---GCUAAAAACAGCCGUGUGCCCAAAACAGCUGAGUAAUAAAAUUCAAUUACUCAAGAACACUAAAUCUAACAAAUAAAGCAGCAACUCAAU
.((((---(((......))))((((((........))((((((((........))))))))...))))........................)))... ( -20.40)
>DroSec_CAF1 17182 95 - 1
CGAGG---GCUAAAAACAGCCGUGUGCCCAAAACAGCUGAGUAAUAAAAUUCAAUUACUCAAGAACACAAAAUCUAACAAAUAAAGCAGCGACUCAAU
.((((---(((......))))((((((........))((((((((........))))))))...))))........................)))... ( -20.90)
>DroEre_CAF1 17611 92 - 1
CGAGG---GCUAAAAACAGCCGUGUGCCCAAAACAGCUGAGUAAUAAAAUUCAAUUACCCAAGAACACAAAAUCUAACAAAUAAAGC---AACUCAAU
.((((---(((......))))((((((........))((.(((((........))))).))...))))...................---..)))... ( -16.10)
>DroYak_CAF1 17055 95 - 1
CGAGCACUGCUAAAAACAGCCGUGUGCCCAAAACAGCUGAGUAAUAAAAUUCAAUUACCCAAGAACACAAAAUCUAACAAAUAAAGC---AACUCAAU
.(((...((((.....((((.((.........)).)))).(((((........)))))..........................)))---).)))... ( -14.00)
>consensus
CGAGG___GCUAAAAACAGCCGUGUGCCCAAAACAGCUGAGUAAUAAAAUUCAAUUACCCAAGAACACAAAAUCUAACAAAUAAAGC___AACUCAAU
.(((....(((......))).((((((........))((((((((........))))))))...))))........................)))... (-13.60 = -14.10 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:14 2006