Locus 4274

Sequence ID 2L_DroMel_CAF1
Location 12,216,307 – 12,216,401
Length 94
Max. P 0.694360
window6741

overview

Window 1

Location 12,216,307 – 12,216,401
Length 94
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 59.75
Mean single sequence MFE -29.74
Consensus MFE -11.70
Energy contribution -11.62
Covariance contribution -0.08
Combinations/Pair 1.15
Mean z-score -1.83
Structure conservation index 0.39
SVM decision value 0.34
SVM RNA-class probability 0.694360
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12216307 94 + 22407834
AUUCAAUU--GACAAUUUUCGGAGGGGCCGAUGCAGGGC----UCAGUCUAACAGGUUGCUA-UGAUGGCAACAUGUGGAAGA--GAA-GAGUUG--------GCC---AGGAGA
........--.....(((((.....(((((((......(----((..((((.((.((((((.-....)))))).)))))).))--)..-..))))--------)))---.))))) ( -27.40)
>DroVir_CAF1 48699 103 + 1
AUUCA-----UACAGCCAGC--AGCGG-UCUCGCAAGGA----UGUGUCUAACAGGUUGCUGGCCACGGCAACAUGUGGACGCACGAGCGAGGCGAUUUGCACAGCCGAGCGAAA
..((.-----....((....--.)).(-((((((..(..----((((((((.((.(((((((....))))))).)))))))))))..)))))))))(((((........))))). ( -38.70)
>DroGri_CAF1 52430 100 + 1
AUACAACCAGUACAACCAUC--CAGAG-ACUCGCAAGGA----UG--UCUAACAGGUUGCUGGCCAUGGCAACAUGUGGACGC--GAACGAAUCGCG----GCUCCCAAACGAAA
......((((..(((((...--.(((.-(..(....)..----).--)))....))))))))).((((....))))(((.(((--((.....)))))----....)))....... ( -31.00)
>DroEre_CAF1 43281 93 + 1
AUUCAAUU--GACAAUUUUCGGAGGGG-CGAUGCAGGGC----UCAGUCUAACAGGUUGCUA-UGAUGGCAACAUGUGGAAGA--GAA-GAGGCG--------GCC---ACGAAA
........--......(((((....((-(..(((....(----((..((((.((.((((((.-....)))))).)))))).))--)..-...)))--------)))---.))))) ( -25.30)
>DroPer_CAF1 76724 87 + 1
CGGAAUGC--CACAAUGCUCUAAGGAGGAGUUAUAGGCCUUCUUCCGUCUAACAGGUUGCUA-UGAAGGCAACAUGUGGAAGA--GCU-----------------------CAAA
.((....)--).....(((((..(((((((.........))))))).((((.((.((((((.-....)))))).)))))))))--)).-----------------------.... ( -26.30)
>consensus
AUUCAAUC__GACAAUCAUC__AGGGG_AGUUGCAGGGC____UCAGUCUAACAGGUUGCUA_UGAUGGCAACAUGUGGAAGA__GAA_GAGGCG________GCC___ACGAAA
...............................................((((.((.(((((((....))))))).))))))................................... (-11.70 = -11.62 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:55 2006