Locus 3107

Sequence ID X_DroMel_CAF1
Location 8,282,807 – 8,282,923
Length 116
Max. P 0.991156
window5080 window5081

overview

Window 0

Location 8,282,807 – 8,282,923
Length 116
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 92.88
Mean single sequence MFE -27.81
Consensus MFE -26.19
Energy contribution -26.00
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.94
SVM decision value 0.57
SVM RNA-class probability 0.783702
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8282807 116 + 22224390
AACUGGACAAACAGGUUUUUGUU--UUUCCUUCUUUUUAGUUUGUUUAGAUUGUUUUUGUGCCGGCUUUCCGCGAAAGCUGUUAAAACGGCACUUUGCCUGUCCUCUCUCUCCUUCGC
..(((((((((((((........--...)))........))))))))))...((....((((((..((..(((....)).)..))..))))))...)).................... ( -27.10)
>DroSec_CAF1 4197 116 + 1
AACUGGACAAACAGGUUUUUGUU--UUUCCUUCUUUUUGGUUUGUUUAGAUUGUUUUUGUGCCGGCUUUCCGCGAAAGCUGUUAAAACGGCACUUUGCCUGCCCCCUGUCUUCGUAGC
..(((((((((((((........--...)))........))))))))))...((....((((((..((..(((....)).)..))..))))))...))((((...........)))). ( -27.70)
>DroSim_CAF1 4160 116 + 1
AACUGGACAAACAGGUUUUUGUU--UUUCCUUCUUUUUGGUUUGUUUAGAUUGUUUUUGUGCCGGCUUUCCGCGAAAGCUGUUAAAACGGCACUUUGCCUGCCCUCUCUCUUCGUGGC
..(((((((((((((........--...)))........)))))))))).........((((((..((..(((....)).)..))..))))))...(((................))) ( -28.69)
>DroEre_CAF1 7320 115 + 1
AACUGGACAAACAGGUUUUUGUUUUUUUUUGUCUUUCUGGUUUGUUUAGAUUGUUUUUGUGCCGGCUUUCCGCGAAAGCUGUUAAAACGGCACUUUGCCUGCCCUCUCUC---UUCGC
..(((((((((((((....................))).))))))))))...((....((((((..((..(((....)).)..))..))))))...))............---..... ( -27.75)
>consensus
AACUGGACAAACAGGUUUUUGUU__UUUCCUUCUUUUUGGUUUGUUUAGAUUGUUUUUGUGCCGGCUUUCCGCGAAAGCUGUUAAAACGGCACUUUGCCUGCCCUCUCUCUUCGUCGC
..((((((((((..(.....................)..))))))))))...((....((((((..((..(((....)).)..))..))))))...)).................... (-26.19 = -26.00 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 8,282,807 – 8,282,923
Length 116
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 92.88
Mean single sequence MFE -27.55
Consensus MFE -26.43
Energy contribution -26.25
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -2.36
Structure conservation index 0.96
SVM decision value 2.25
SVM RNA-class probability 0.991156
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8282807 116 - 22224390
GCGAAGGAGAGAGAGGACAGGCAAAGUGCCGUUUUAACAGCUUUCGCGGAAAGCCGGCACAAAAACAAUCUAAACAAACUAAAAAGAAGGAAA--AACAAAAACCUGUUUGUCCAGUU
..............((((((((...((((((........((((((...))))))))))))...........................(((...--........))))))))))).... ( -27.60)
>DroSec_CAF1 4197 116 - 1
GCUACGAAGACAGGGGGCAGGCAAAGUGCCGUUUUAACAGCUUUCGCGGAAAGCCGGCACAAAAACAAUCUAAACAAACCAAAAAGAAGGAAA--AACAAAAACCUGUUUGUCCAGUU
..............(((((((((..((((((........((((((...))))))))))))..................((........))...--..........))))))))).... ( -28.00)
>DroSim_CAF1 4160 116 - 1
GCCACGAAGAGAGAGGGCAGGCAAAGUGCCGUUUUAACAGCUUUCGCGGAAAGCCGGCACAAAAACAAUCUAAACAAACCAAAAAGAAGGAAA--AACAAAAACCUGUUUGUCCAGUU
..............(((((((((..((((((........((((((...))))))))))))..................((........))...--..........))))))))).... ( -28.20)
>DroEre_CAF1 7320 115 - 1
GCGAA---GAGAGAGGGCAGGCAAAGUGCCGUUUUAACAGCUUUCGCGGAAAGCCGGCACAAAAACAAUCUAAACAAACCAGAAAGACAAAAAAAAACAAAAACCUGUUUGUCCAGUU
.....---......(((((((((..((((((........((((((...))))))))))))........(((.........)))......................))))))))).... ( -26.40)
>consensus
GCGAAGAAGAGAGAGGGCAGGCAAAGUGCCGUUUUAACAGCUUUCGCGGAAAGCCGGCACAAAAACAAUCUAAACAAACCAAAAAGAAGGAAA__AACAAAAACCUGUUUGUCCAGUU
..............(((((((((..((((((........((((((...))))))))))))........(((.............)))..................))))))))).... (-26.43 = -26.25 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:06 2006