Locus 3407

Sequence ID 3L_DroMel_CAF1
Location 9,987,581 – 9,987,680
Length 99
Max. P 0.728652
window5326

overview

Window 6

Location 9,987,581 – 9,987,680
Length 99
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.03
Mean single sequence MFE -18.34
Consensus MFE -12.67
Energy contribution -13.17
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.69
SVM decision value 0.42
SVM RNA-class probability 0.728652
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9987581 99 - 23771897
CCAGCAGAGAACACGAAUCGAAAAAAAGGGACAAAUAUUUG-CCAAUGUCAGAGCGCCGCAAAGUAUGCAAAACAGCUUUGACUAACACCUACACACAGC---
...(((((.........((........))........))))-)....((((((((...(((.....)))......)))))))).................--- ( -16.43)
>DroVir_CAF1 42326 86 - 1
--AGC-----------AUCUAAA-AAAAGGACAAAUAUUUGGCCAAUGCCACAGCGCCGCAAAGUAUGCAAAACAGCUUCGUCUAACACCUUCACUAUCA---
--...-----------.......-....((((.......((((....)))).(((...(((.....)))......)))..))))................--- ( -11.60)
>DroPse_CAF1 43741 96 - 1
CCUGCUU--UCUUCGAACCGAAA-AAAGGGACAAAUAUUUG-CCAAUGUCAGAGCGCCGCAAAGUAUGCAAAACAGCUUUGACUAACACCUACACAGCAG---
.(((((.--..((((...)))).-..((((.(((....)))-.)...((((((((...(((.....)))......)))))))).....)))....)))))--- ( -20.50)
>DroWil_CAF1 61276 86 - 1
CCA------------AGUCCGAA-AAAAGGGCAAAUAUUUG-CCAAUGUCAGAGCGCCGCAAAGUAUGCAAAACAGCUUUGACUAACACCUACACACACA---
...------------........-.....(((((....)))-))...((((((((...(((.....)))......)))))))).................--- ( -18.80)
>DroAna_CAF1 39089 96 - 1
C------AGAACACGAACCGAAA-AAAGGGACAAAUAUUUGUCCAAUGUCAGAGCGCCGCAAAGUAUGCAAAACAGCUUUGACUAACACCUACACAGGACCCA
.------..........((....-....((((((....))))))...((((((((...(((.....)))......)))))))).............))..... ( -22.20)
>DroPer_CAF1 43454 96 - 1
CCUGCUU--UCUUCGAACCGAAA-AAAGGGACAAAUAUUUG-CCAAUGUCAGAGCGCCGCAAAGUAUGCAAAACAGCUUUGACUAACACCUACACAGCAG---
.(((((.--..((((...)))).-..((((.(((....)))-.)...((((((((...(((.....)))......)))))))).....)))....)))))--- ( -20.50)
>consensus
CCAGC________CGAACCGAAA_AAAGGGACAAAUAUUUG_CCAAUGUCAGAGCGCCGCAAAGUAUGCAAAACAGCUUUGACUAACACCUACACAGAAA___
............................((.(((....))).))...((((((((...(((.....)))......)))))))).................... (-12.67 = -13.17 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:24 2006