Locus 1877

Sequence ID 3R_DroMel_CAF1
Location 5,391,378 – 5,391,498
Length 120
Max. P 0.800375
window3083

overview

Window 3

Location 5,391,378 – 5,391,498
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.94
Mean single sequence MFE -38.40
Consensus MFE -25.54
Energy contribution -24.85
Covariance contribution -0.69
Combinations/Pair 1.48
Mean z-score -1.51
Structure conservation index 0.67
SVM decision value 0.61
SVM RNA-class probability 0.800375
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5391378 120 - 27905053
AAACUCUGCGAGUUAUGGAUGGUGGUGCCGCCAAGAAUGACUUUAUAGCCGGCGUUGUUUAACUGGUGCACCGCUAAGGCUUCCUCGUACGUGGCACCGCCAAUAAUGAACACGACAACC
......((((.(((.....((((((((((((...(.((((......((((((((.(((.........))).))))..))))...)))).)))))))))))))......))).)).))... ( -38.90)
>DroVir_CAF1 1236 120 - 1
AAACUCUGGGAAUUGUGUAUGGUGGUGCCGCCCAGAAUCACCCUAUAGCCGGCAUUAUUGAGCUGAUGUACUGUGAGGGCUUCCUCGUAGGUGGCGCCACCGAUGAUAAAGACAACCACC
......(((......(((.(((((((((((((..((....((((((((...((((((......)))))).)))).)))).....))...)))))))))))))...))).......))).. ( -42.12)
>DroGri_CAF1 1261 120 - 1
AAGCUCUGGGAAUUGUGUAUGGUGGUGCCACCGAGGAUGAUCCGAUAGCCAGCAUUAUUCAGUUGAUGUACCGUCAAUGCCUCCUCAUAGGUAGCGCCGCCAAUGAUGAAGACAACCACU
..(.(((....((..(...(((((((((.((((((((.(....((..(...((((((......)))))).)..))....).)))))...))).))))))))))..))..))))....... ( -34.20)
>DroWil_CAF1 1229 120 - 1
AAUGACUGGGAAUUGUGUAUGGUGGUGCCACCUAAAAUUAUUUUGUAGCCAGCAUUGUUUAGCUGAUGGACAGCCAAUGCUUCUUCGUAGGUGGCGCCGCCAAUGAUGAAGACAAUCACC
.......((..(((((((.(((((((((((((((.........((.((..(((((((....((((.....))))))))))).)).)))))))))))))))))...))....)))))..)) ( -42.70)
>DroMoj_CAF1 1718 120 - 1
AAGCUUUGGGAAUUGUGUACAGUGGUGCCGCCAAGGAUCACCCGAUAUCCAGCAUUGUUCAGCUGAUGUACGGCAAAGGCCUCUUCGUACGUGGCACCGCCAAUGAUAAAAACCACUACC
......(((...((((.....((((((((((...((.....))......((((........))))..(((((((....))).....)))))))))))))).....))))...)))..... ( -34.20)
>DroAna_CAF1 1223 120 - 1
AAGCUUUGCGAAUUGUGUAUUGUUGUGCCACCGAGGAUGACCCGGUAACCAGCAUUAUUGAGCUGGUGAACAGAUAAGGCCUCCUCAUAGGUGGCACCGCCAAUUAUAAAGACAACCACU
..((((((..(((((......((.(((((((((((((.(.((..((.((((((........))))))......))..))).)))))...)))))))).))))))).))))).)....... ( -38.30)
>consensus
AAGCUCUGGGAAUUGUGUAUGGUGGUGCCACCAAGAAUGACCCGAUAGCCAGCAUUAUUCAGCUGAUGUACAGCCAAGGCCUCCUCGUAGGUGGCACCGCCAAUGAUAAAGACAACCACC
............((((...(((((((((((((..((.....))......((((........))))........................)))))))))))))...))))........... (-25.54 = -24.85 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:42 2006