Locus 4130

Sequence ID 3R_DroMel_CAF1
Location 11,267,032 – 11,267,152
Length 120
Max. P 0.520506
window6618

overview

Window 8

Location 11,267,032 – 11,267,152
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.11
Mean single sequence MFE -48.78
Consensus MFE -39.37
Energy contribution -40.07
Covariance contribution 0.70
Combinations/Pair 1.14
Mean z-score -1.99
Structure conservation index 0.81
SVM decision value -0.03
SVM RNA-class probability 0.520506
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11267032 120 - 27905053
GACUCCAUGCCCAGGAACGAGGGCUGGAACAGAGCCUCGGGGCAGCGGAAGCGCUCGUUGCCAAUGGUGAUCACCUGGCCGUCAGGCAACUCGUACGACUUCUCCAGCGAGGUGGAGGCG
...((((.((((........)))))))).....(((((.((((.((....))))))((((((.(((((.(.....).)))))..)))))).......(((((......))))).))))). ( -50.60)
>DroVir_CAF1 696 120 - 1
GACUCCAUGCCCAAGAACGAAGGCUGGAACAGAGCCUCGGGGCAGCGGAAACGCUCAUUGCCAAUGGUAAUGACCUGACCAUCAGGCAACUCAUACGACUUCUCCAGGGAUGUGGAGGCG
..((((((((((......((.((((.......))))))((((..(((....)))((((((((...))))))))((((.....))))...............)))).))).)))))))... ( -45.70)
>DroGri_CAF1 696 120 - 1
GACUCCAUGCCCAAGAACGAGGGCUGGAACAGAGCUUCGGGGCAACGGAAACGCUCAUUGCCAAUGGUGAUGACCUGACCAUCGGGCAACUCAUACGACUUCUCCAGGGAGGUGGAGGCG
...((((.((((........))))))))...((((.....(....)(....)))))...(((....((((((.((((.....))))))..)))).(.((((((....)))))).).))). ( -43.40)
>DroWil_CAF1 696 120 - 1
GAUUCCAUGCCCAAGAAAGAGGGCUGGAACAGGGCCUCAGGGCAACGGAAGCGCUCAUUGCCAAUGGUGAUGACCUGACCAUCGGGCAACUCGUAGGACUUCUCCAGCGAGGUAGAGGCA
..(((((.((((........)))))))))....(((((.((((..(....).)))).(((((.(((((.(.....).)))))..)))))(((((.(((....))).)))))...))))). ( -51.00)
>DroAna_CAF1 696 120 - 1
GACUCCAUGCCCAAGAACGAGGGCUGGAACAGGGCCUCAGGGCAGCGGAAACGCUCGUUGCCAAUGGUGAUGACCUGGCCGUCGGGCAACUCGUAAGAUUUCUCCAGGGAAGUAGAGGCG
...((((.((((........)))))))).....(((((...((((((....)))).((((((.(((((.(.....).)))))..))))))..))...((((((....)))))).))))). ( -49.50)
>DroPer_CAF1 6634 120 - 1
GACUCCAUUCCCAGGAAGGAAGGCUGGAACAGGGCCUCAGGGCAGCGGAAACGCUCGUUGCCAAUGGUGAUGACCUGUCCGUCGGGCAACUCGUACGACUUCUCCAAGGAGGUGGAGGCG
..((((((..((.(((..((((...(((.(((((((....))).(((....)))((((..((...))..)))))))))))(((((....).)).))..)))))))..))..))))))... ( -52.50)
>consensus
GACUCCAUGCCCAAGAACGAGGGCUGGAACAGAGCCUCAGGGCAGCGGAAACGCUCAUUGCCAAUGGUGAUGACCUGACCAUCGGGCAACUCGUACGACUUCUCCAGGGAGGUGGAGGCG
...((((.((((........)))))))).....(((((.(((.((((....))))..(((((.(((((.(.....).)))))..)))))))).....((((((....)))))).))))). (-39.37 = -40.07 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:58 2006