Locus 1411

Sequence ID 3L_DroMel_CAF1
Location 4,109,074 – 4,109,190
Length 116
Max. P 0.579814
window2191

overview

Window 1

Location 4,109,074 – 4,109,190
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 69.89
Mean single sequence MFE -42.05
Consensus MFE -15.26
Energy contribution -15.40
Covariance contribution 0.14
Combinations/Pair 1.30
Mean z-score -1.82
Structure conservation index 0.36
SVM decision value 0.09
SVM RNA-class probability 0.579814
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4109074 116 - 23771897
GAGCGCGAGGAACGCCGCAAGCGGGUGGAGGCCAUCAUGCUGCGCACCCGCAAGGGAGGCGC---UGCCACCACACCCUCCAAGGUAUGUUCUAGCAUUGGAAAUUUACAACCAAGCGU
..((((((((..((.(....)))(((((.(((......)))((((.(((....)))..))))---..)))))....))))....(((..(((((....)))))...)))......)))) ( -44.60)
>DroPse_CAF1 12892 112 - 1
GAGCGUGAAGAGCGACGCAAGCGCGUCGAAGCGAUUAUGUCACGCACCCGCAAGGCCGGAGC---CGCGGCUACUCCCUCUAAGGUAGUAAUUCCUACAGGAGA----CAAGAGAGAGU
..((((((.(..((((((....))))))...).......))))))..((((..(((....))---)))))..((((.((((...((((......)))).(....----).)))).)))) ( -41.50)
>DroGri_CAF1 11248 98 - 1
GAGCGCGAGGAGCGACGCAAACGCGUCGAGGCAAUCAUGUCGCGCACACGCAAAGGCGGCGCUGCUGCUGCCACGCCCGCCAAGGUAGUAGCAA---------------------CUGC
..((((((.((.((((((....))))))......))...))))))...(((....)))(((.((((((((((...........)))))))))).---------------------.))) ( -40.90)
>DroEre_CAF1 10795 102 - 1
GAGCGCGAGGAACGCCGCAAGCGAGUGGAGGCCAUCAUGCUGCGUACCCGCAAGGGAGGCGC---UGCCACCACACCCUCAAAGGUAGGAACUA--------------CAACCAAGCGU
..((((((((..((.(....))).((((.(((.........((((.(((....)))..))))---.))).))))..))))...(((.(......--------------).)))..)))) ( -41.60)
>DroYak_CAF1 10995 97 - 1
GAGCGCGAGGAACGCCGCAAGCGCGUGGAGGCCAUCAUGCUGCGUACCCGCAAGGGAGGCGC---UGCCACCACACCCUCGAAGGUAAGAACUA--------------GCAGCA-----
..((((((((...(((....).))((((.(((.........((((.(((....)))..))))---.))).))))..))))...(((....))).--------------)).)).----- ( -38.60)
>DroPer_CAF1 10783 112 - 1
GAGCGUGAAGAGCGACGCAAGCGCGUCGAAGCGAUUAUGUCACGCACCCGCAAGGCCGGAGC---CGCGGCUACUCCCUCUAAGGUAGUAAUUCCUACCGGAGA----CAAGAGAGAGU
..((((((.(..((((((....))))))...).......))))))..((((..(((....))---)))))..((((.((((..(((((......)))))(....----).)))).)))) ( -45.10)
>consensus
GAGCGCGAGGAACGACGCAAGCGCGUCGAGGCCAUCAUGCCGCGCACCCGCAAGGGAGGCGC___UGCCACCACACCCUCCAAGGUAGGAACUA______________CAAGCAAGAGU
..(((((.....)).)))......((((.(((......)))((((..((....))...)))).....)))).....((.....)).................................. (-15.26 = -15.40 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:47 2006