Locus 2755

Sequence ID	3L_DroMel_CAF1
Location	7,778,039 – 7,778,129
Length	90
Max. P	0.910022

overview

Window 7

Location	7,778,039 – 7,778,129
Length	90
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	78.38
Mean single sequence MFE	-40.10
Consensus MFE	-26.42
Energy contribution	-28.10
Covariance contribution	1.68
Combinations/Pair	1.13
Mean z-score	-1.94
Structure conservation index	0.66
SVM decision value	0.97
SVM RNA-class probability	0.893002
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7778039 90 + 23771897
AUUGGUGUGGGCGUUGGCGUGGGU-------------------GUGGGCGUGGCAAUGCCGCCCAUUUGCCGGAUGUGCGUGGUCAGUGCACUGGCCAGUGUAUUGAGU
..(((((((((((((.(((....)-------------------)).)))..(((...)))))))))..))))((((..(.(((((((....))))))))..)))).... ( -37.30)
>DroPse_CAF1 21452 101 + 1
--------GGGAGGCGGCUUGGGUCCUGGCACUGGGACUGCUCGGGGGCGAGGCUAUGCCGCCCAUCUGGCGGAUGUGGUUGGUCAGGGCGCUGGCCAGGAUCCCCAGC
--------..(.((((((...((.(((.((.(((((....)))))..)).)))))..)))))))..((((.((((.(...(((((((....)))))))).)))))))). ( -49.60)
>DroSec_CAF1 18422 90 + 1
AUUGGUGUGGGCGUUGGCGUGGGU-------------------GUGGGCGUGGCAAUGCCGCCCAUUUGCCGGAUGUGCGUGGUCAGUGCACUGGCCAGUGUAUUGAGU
..(((((((((((((.(((....)-------------------)).)))..(((...)))))))))..))))((((..(.(((((((....))))))))..)))).... ( -37.30)
>DroEre_CAF1 18461 90 + 1
GUUGGUGUGGGCGUUGGCAUGGGU-------------------GUAGGCGUGGCAAUGCCGCCCAUUUGCCGGAUGUGCGUGGUCAGUGCACUGGCCAGUGUAUUGAGU
..((((((((((....(((....)-------------------)).(((((....)))))))))))..))))((((..(.(((((((....))))))))..)))).... ( -37.90)
>DroYak_CAF1 19647 90 + 1
GUUGGUGUGGGCGUUGGCGUGGGU-------------------GUGGGCGUGGCAAUGCCGCCCAUUUGGCGAAUGUGCGUGGUCAGCGCACUGGCCAGCGUAUUGAGU
((((((..(.((((((((((((((-------------------...(((((....)))))))))))...(((......))).)))))))).)..))))))......... ( -38.40)
>consensus
AUUGGUGUGGGCGUUGGCGUGGGU___________________GUGGGCGUGGCAAUGCCGCCCAUUUGCCGGAUGUGCGUGGUCAGUGCACUGGCCAGUGUAUUGAGU
.(((((((((((....((....))......................(((((....)))))))))))..)))))..((((((((((((....))))))).)))))..... (-26.42 = -28.10 +   1.68)

alignment

secondary structure

dotplot

Window 8

Location	7,778,039 – 7,778,129
Length	90
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	78.38
Mean single sequence MFE	-26.38
Consensus MFE	-17.66
Energy contribution	-17.94
Covariance contribution	0.28
Combinations/Pair	1.12
Mean z-score	-1.96
Structure conservation index	0.67
SVM decision value	1.07
SVM RNA-class probability	0.910022
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7778039 90 - 23771897
ACUCAAUACACUGGCCAGUGCACUGACCACGCACAUCCGGCAAAUGGGCGGCAUUGCCACGCCCAC-------------------ACCCACGCCAACGCCCACACCAAU
...........((((..((((.........))))....((....((((((.........)))))).-------------------..))..)))).............. ( -22.80)
>DroPse_CAF1 21452 101 - 1
GCUGGGGAUCCUGGCCAGCGCCCUGACCAACCACAUCCGCCAGAUGGGCGGCAUAGCCUCGCCCCCGAGCAGUCCCAGUGCCAGGACCCAAGCCGCCUCCC--------
.((((((((..(((.(((....))).))).....)))).))))..(((((((...((.(((....))))).((((........))))....)))))))...-------- ( -37.10)
>DroSec_CAF1 18422 90 - 1
ACUCAAUACACUGGCCAGUGCACUGACCACGCACAUCCGGCAAAUGGGCGGCAUUGCCACGCCCAC-------------------ACCCACGCCAACGCCCACACCAAU
...........((((..((((.........))))....((....((((((.........)))))).-------------------..))..)))).............. ( -22.80)
>DroEre_CAF1 18461 90 - 1
ACUCAAUACACUGGCCAGUGCACUGACCACGCACAUCCGGCAAAUGGGCGGCAUUGCCACGCCUAC-------------------ACCCAUGCCAACGCCCACACCAAC
............(((..((((.........))))....((((..((((.(((........)))...-------------------.))))))))...)))......... ( -23.70)
>DroYak_CAF1 19647 90 - 1
ACUCAAUACGCUGGCCAGUGCGCUGACCACGCACAUUCGCCAAAUGGGCGGCAUUGCCACGCCCAC-------------------ACCCACGCCAACGCCCACACCAAC
........((.((((..(((((.......)))))..........((((((.........)))))).-------------------......)))).))........... ( -25.50)
>consensus
ACUCAAUACACUGGCCAGUGCACUGACCACGCACAUCCGGCAAAUGGGCGGCAUUGCCACGCCCAC___________________ACCCACGCCAACGCCCACACCAAC
...........((((..((((.........))))..........((((((((...)))..)))))..........................)))).............. (-17.66 = -17.94 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:58 2006