Locus 5129

Sequence ID X_DroMel_CAF1
Location 13,404,024 – 13,404,137
Length 113
Max. P 0.685873
window8335

overview

Window 5

Location 13,404,024 – 13,404,137
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.38
Mean single sequence MFE -34.65
Consensus MFE -23.40
Energy contribution -23.08
Covariance contribution -0.31
Combinations/Pair 1.12
Mean z-score -1.74
Structure conservation index 0.68
SVM decision value 0.32
SVM RNA-class probability 0.685873
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13404024 113 - 22224390
AGUGAGCAUUCUUCGGUUUGUUUGUAAUUAACAGUUGAGGGGCUUAGGGCCAUAAGCUCCUCGGGAACAC-------CGUCAGGCAUCAACACAGUGGGCAAUCGAAAAACCCUGGCCAA
.(..((((..(....)..))))..)...........((((((((((......))))))))))((.....)-------)....(((.......(((.((............)))))))).. ( -32.71)
>DroSec_CAF1 4 96 - 1
--------------GGUUUGUUUGUAAUUAUCAGUUGAGGGGCUUAGGGCCAUAAGCUCCUCGAGAACAC-------CGUCAGGCAUCAUCACAGUGGGCAAUCGGAAAAGC-AGGCC--
--------------(((((((((...........((((((((((((......)))))))))))).....(-------((....((.((((....))))))...)))..))))-)))))-- ( -34.60)
>DroSim_CAF1 8 112 - 1
AGUGAGCAUUCUUCGGUUUGUUUGUAAUUAACAGUUGAGGGGCUUAGGGCCAUAAGCUCCUCGGGAACAC-------CGUCAGGCAUCAUCACAGUGGGCAAUCGGAAGAGC-AGGCCAA
.((((....(((.(((((((((.......)))))((((((((((((......))))))))))))....))-------))..))).....))))....(((..((....))..-..))).. ( -36.80)
>DroYak_CAF1 7718 109 - 1
AGUGAGCAAUC----GUUUGUUUGUAAUUAACAGUUGAGGGGCUUAGGGCCAUAAGCUCCUCAGGAACAUCAGCCGUCGUCAGACAUC-----AAUGGGCAAACGAAAA-AC-AGGCCAA
..((.((..((----(((((((..(.........((((((((((((......))))))))))))...........(((....)))...-----.)..)))))))))...-..-..)))). ( -34.50)
>consensus
AGUGAGCAUUC___GGUUUGUUUGUAAUUAACAGUUGAGGGGCUUAGGGCCAUAAGCUCCUCGGGAACAC_______CGUCAGGCAUCAUCACAGUGGGCAAUCGAAAAAGC_AGGCCAA
...............(((((.((((.....))))((((((((((((......))))))))))))................)))))............(((...............))).. (-23.40 = -23.08 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:43 2006