Locus 3004

Sequence ID 3R_DroMel_CAF1
Location 8,043,572 – 8,043,692
Length 120
Max. P 0.521330
window4834

overview

Window 4

Location 8,043,572 – 8,043,692
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.72
Mean single sequence MFE -37.42
Consensus MFE -23.61
Energy contribution -24.87
Covariance contribution 1.26
Combinations/Pair 1.46
Mean z-score -1.32
Structure conservation index 0.63
SVM decision value -0.02
SVM RNA-class probability 0.521330
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8043572 120 + 27905053
UAUUCCUCAAAGCCAGGAGCAGAGCAGGGCGUUCCCUUAGCUCUAAACCUUUCAAAUUGGAUAAAUACUCUGUCAGCUGUUCCUCGGCCGUUUCGCGCAGAAACUCGAUAAGUGAAACCU
...........((((((((((((((((((....))))..)))))...............((((.......))))....)))))).))).(((((((...(.....).....))))))).. ( -32.70)
>DroVir_CAF1 229706 120 + 1
UAUUGCGCAGCGCUUGCAGCAGAGCAUGACGCUCCUGCAGACGCAGCGCCUUCAGCUGGCGCAAAUAUUCCGUCAUCUGUUGCUGUGCCGUUUCGCGUAGGAAUUUGAUCAGCGCCAAUU
....((((.((((..((((((((...(((((....(((....)))(((((.......)))))........))))))))))))).)))).(((((.....))))).......))))..... ( -44.50)
>DroSec_CAF1 109526 120 + 1
UAUUCCGCAAAGCCAGGAGCAGAGCAGGGCGUUCCCUUAGCUCUAGACCUUUCAAAUUGGUUAAAUACUCUGUCAGCUGCUCCUCGGCCGUUUCGCGCAGAAACUCGAUUAGUGAAACCU
.....(((...((((((((((((((((((....))))..))))).((((.........))))................)))))).))).(((((.....))))).......)))...... ( -37.20)
>DroEre_CAF1 114145 120 + 1
UAUUUCGCAAAGCUAGGAGCAAAGCAGGCCGUUCCCUUAGCUGUAGUCCUUUUAAGUUGGUCAAAUACUCUGUCAACUGCUCCUCGGCCGUUUUGCGCAGGAACUCGAUGAGUGAAACCU
.....(((((((((((((((..((((((......)))..)))............((((((.((.......)))))))))))))).)))...)))))).(((.((((...))))....))) ( -31.00)
>DroYak_CAF1 114505 120 + 1
UAUUUCGCAACGCCAGGAGCAGAGCAGGGCGUUCCCUUAGCUGUAGACCUUUCAAGUUGGUCAAAUACUCUGUCAACUGCUCCUCGGCCGUUUCGCGCAGAAACUCGAUAAGUGAAACCU
..((((((...((((((((((((((((((....))))..)))...((((.........))))..............)))))))).))).(((((.....))))).......))))))... ( -42.60)
>DroAna_CAF1 117116 120 + 1
UGUUGCGCAAAGCGAGUAGAAGGGCAGGACGCUCCCGCAACUGCAGGCUUUUCAGAUUGCUUAAAUACUCAGUGAUCUGCUCCCGGGCCGUUUCGCGCAGAAACUUGAUCAGAGCCAGCU
.((((.((.((((((...(((((((.((......))((....))..)))))))...))))))..........(((((.(((....))).(((((.....)))))..)))))..)))))). ( -36.50)
>consensus
UAUUCCGCAAAGCCAGGAGCAGAGCAGGGCGUUCCCUUAGCUGUAGACCUUUCAAAUUGGUCAAAUACUCUGUCAACUGCUCCUCGGCCGUUUCGCGCAGAAACUCGAUAAGUGAAACCU
..((((((...(((((((((((.((((((.(((.....)))....((((.........)))).....))))))...)))))))).))).(((((.....))))).......))))))... (-23.61 = -24.87 +   1.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:56 2006