Locus 2363

Sequence ID	2L_DroMel_CAF1
Location	6,406,667 – 6,406,760
Length	93
Max. P	0.996365

overview

Window 6

Location	6,406,667 – 6,406,760
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	94.41
Mean single sequence MFE	-34.26
Consensus MFE	-30.82
Energy contribution	-30.98
Covariance contribution	0.16
Combinations/Pair	1.13
Mean z-score	-1.46
Structure conservation index	0.90
SVM decision value	1.12
SVM RNA-class probability	0.917669
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6406667 93 + 22407834
GUCGAGCAUUGAAUUAUUGGACGAAGGUCAGCCGAUCCGGGCCAACCUCCAACGUCUGGCGCCCAGUGGGGCAACGACCCAACGGGCCAAAGG
........(((.....(..((((.((((..(((......)))..))))....))))..).((((..((((.......))))..)))))))... ( -31.40)
>DroSec_CAF1 35035 93 + 1
GCCGAGCAUUGAAUUAUUGGACGAAGGUCAGCCGAUCCGGUCCAACCUCCAAUGUCUGGUGCCCAGUGGGCCAACGACCCAAUGGGCCAAAGG
((((..(((((.....((((((...((((....))))..))))))....)))))..))))(((((.((((.......)))).)))))...... ( -36.10)
>DroSim_CAF1 35547 93 + 1
GCCGAGCAUUGAAUUAUUGGACGAAGGUCAGCCGAUCCGGGCCAACCUCCGAUGUCUGGUGCCCAGUGGGCCAACGACCCAAUGGGCCAAAGG
((((..(((((........(((....))).(((......))).......)))))..))))(((((.((((.......)))).)))))...... ( -35.10)
>DroEre_CAF1 33457 93 + 1
GCCGAGCAUUGAGUUAUUGGACGAAGGUCAGCCGAUCCGGGCCAACCUUCAAUGUCUGCUGCCCAGUGGGCCAACGACCCAAUGGGCCAAAGG
((.((.((((..(((....)))((((((..(((......)))..)))))))))))).)).(((((.((((.......)))).)))))...... ( -34.80)
>DroYak_CAF1 38846 93 + 1
GCCGAGCAUUGAAUUAUUAGACGAAGGUCAGACGAUCCGGGUCAACCUCCAAUGUCUGGUGCCCAGUGGGCCAACGACCCAAUGGGCCAAAGG
((((..(((((........(((....))).(((.......)))......)))))..))))(((((.((((.......)))).)))))...... ( -33.90)
>consensus
GCCGAGCAUUGAAUUAUUGGACGAAGGUCAGCCGAUCCGGGCCAACCUCCAAUGUCUGGUGCCCAGUGGGCCAACGACCCAAUGGGCCAAAGG
((((..(((((........(((....))).........((.....))..)))))..))))(((((.((((.......)))).)))))...... (-30.82 = -30.98 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	6,406,667 – 6,406,760
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	94.41
Mean single sequence MFE	-37.30
Consensus MFE	-33.22
Energy contribution	-33.70
Covariance contribution	0.48
Combinations/Pair	1.07
Mean z-score	-2.04
Structure conservation index	0.89
SVM decision value	2.69
SVM RNA-class probability	0.996365
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6406667 93 - 22407834
CCUUUGGCCCGUUGGGUCGUUGCCCCACUGGGCGCCAGACGUUGGAGGUUGGCCCGGAUCGGCUGACCUUCGUCCAAUAAUUCAAUGCUCGAC
...((((...((((((((..(((((....)))))...)))...((((((..(((......)))..))))))..)))))...))))........ ( -34.70)
>DroSec_CAF1 35035 93 - 1
CCUUUGGCCCAUUGGGUCGUUGGCCCACUGGGCACCAGACAUUGGAGGUUGGACCGGAUCGGCUGACCUUCGUCCAAUAAUUCAAUGCUCGGC
......(((((.(((((.....))))).))))).((((.(((((((.(((((((.(((..((....))))))))))))..))))))))).)). ( -38.60)
>DroSim_CAF1 35547 93 - 1
CCUUUGGCCCAUUGGGUCGUUGGCCCACUGGGCACCAGACAUCGGAGGUUGGCCCGGAUCGGCUGACCUUCGUCCAAUAAUUCAAUGCUCGGC
......(((((.(((((.....))))).))))).((((.((((((((((..(((......)))..)))))))............))))).)). ( -39.70)
>DroEre_CAF1 33457 93 - 1
CCUUUGGCCCAUUGGGUCGUUGGCCCACUGGGCAGCAGACAUUGAAGGUUGGCCCGGAUCGGCUGACCUUCGUCCAAUAACUCAAUGCUCGGC
......(((((((((((..(((((((...))))....(((...((((((..(((......)))..))))))))))))..))))))))...))) ( -40.60)
>DroYak_CAF1 38846 93 - 1
CCUUUGGCCCAUUGGGUCGUUGGCCCACUGGGCACCAGACAUUGGAGGUUGACCCGGAUCGUCUGACCUUCGUCUAAUAAUUCAAUGCUCGGC
((....(((((.(((((.....))))).)))))...((((...((((((((((.......))).)))))))))))...............)). ( -32.90)
>consensus
CCUUUGGCCCAUUGGGUCGUUGGCCCACUGGGCACCAGACAUUGGAGGUUGGCCCGGAUCGGCUGACCUUCGUCCAAUAAUUCAAUGCUCGGC
...((((((((.(((((.....))))).)))))....(((...(((((((((((......))))))))))))))........)))........ (-33.22 = -33.70 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:14 2006