Locus 108

Sequence ID	3L_DroMel_CAF1
Location	372,263 – 372,355
Length	92
Max. P	0.798320

overview

Window 4

Location	372,263 – 372,355
Length	92
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	73.96
Mean single sequence MFE	-32.83
Consensus MFE	-17.71
Energy contribution	-18.44
Covariance contribution	0.72
Combinations/Pair	1.11
Mean z-score	-1.59
Structure conservation index	0.54
SVM decision value	0.24
SVM RNA-class probability	0.649069
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 372263 92 + 23771897
UGCAUUUUGGGUGGGGCCUGGGCAACACCUUUGCGAAUCCC---------------UGGAUUUUCAUCUCCUUAUUGG--AGGGAAUAUAUAUAUUCUGAUGGAAACUA
.(((....(((((..((....))..))))).))).......---------------(((.(((((((((((.....))--).((((((....))))))))))))))))) ( -29.40)
>DroPse_CAF1 31165 102 + 1
UGCUUUCUGGGUGGAGCCCCGGCAACACCUUUGCGGACGCUGCUCUCCUCCAGAGGUGGAUUUUC---UCCCUCGAGGAGUUGCCUCG----GAGUCUGAUGGAAAUCG
.(.((((((((((..((....))..)))))...(((((.((((.((((((..((((..(.....)---..))))))))))..))...)----).)))))..))))).). ( -38.70)
>DroSec_CAF1 26359 88 + 1
UGCAUUUUGGGUGGGGCCUGGGCAACACCUUUGCGGAUCCC---------------CGGAUUUUCAUCUCCUUAUUGG--AGGCAUCG----GCUUCUGAUGGAAACUA
.(((....(((((..((....))..))))).)))(..(((.---------------.(((........)))..((..(--((((....----)))))..)))))..).. ( -30.40)
>DroSim_CAF1 27169 88 + 1
UGCAUUUUGGGUGGGGCCUGGGCAACACCUUUGCGGAUCCC---------------UGGAUUUUCAUCUCCUUAUUGG--AGGGAUCG----GCUUCUGAUGGAAACUA
..((((..(((((..((....))..)))))..((.((((((---------------(((((....))))((.....))--))))))).----))....))))....... ( -30.40)
>DroYak_CAF1 28107 88 + 1
UGCAUUUUGGGUGGAGCCUGGGCAACACCUUUGCGGAUCCC---------------UGGAUUUUCAUCUCCCUAUUGG--UGGGAUCG----GCUGCUGAUGGAAACUA
.(((....(((((..((....))..)))))..((.((((((---------------.((((....)))).((....))--.)))))).----)))))....(....).. ( -29.40)
>DroPer_CAF1 32154 102 + 1
UGCUUUCUGGGUGGAGCCCCGGCAACACCUUUGCGGACGCUGCUCUCCUCCAGAGGUGGAUUUUC---UCCCUCGAGGAGUUGCCUCG----GAGUCUGAUGGAAAUCG
.(.((((((((((..((....))..)))))...(((((.((((.((((((..((((..(.....)---..))))))))))..))...)----).)))))..))))).). ( -38.70)
>consensus
UGCAUUUUGGGUGGAGCCUGGGCAACACCUUUGCGGAUCCC_______________UGGAUUUUCAUCUCCCUAUUGG__AGGCAUCG____GAUUCUGAUGGAAACUA
.(((....(((((..((....))..))))).))).((((((................(((........)))..........))))))...................... (-17.71 = -18.44 +   0.72)

alignment

secondary structure

dotplot

Window 5

Location	372,263 – 372,355
Length	92
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	73.96
Mean single sequence MFE	-28.78
Consensus MFE	-13.68
Energy contribution	-14.90
Covariance contribution	1.22
Combinations/Pair	1.10
Mean z-score	-1.92
Structure conservation index	0.48
SVM decision value	0.61
SVM RNA-class probability	0.798320
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 372263 92 - 23771897
UAGUUUCCAUCAGAAUAUAUAUAUUCCCU--CCAAUAAGGAGAUGAAAAUCCA---------------GGGAUUCGCAAAGGUGUUGCCCAGGCCCCACCCAAAAUGCA
..(..(((....(((((....))))).((--((.....))))...........---------------.)))..)(((..((((..((....))..)))).....))). ( -20.90)
>DroPse_CAF1 31165 102 - 1
CGAUUUCCAUCAGACUC----CGAGGCAACUCCUCGAGGGA---GAAAAUCCACCUCUGGAGGAGAGCAGCGUCCGCAAAGGUGUUGCCGGGGCUCCACCCAGAAAGCA
...(((((..(((((((----.((((.....)))))))(((---.....)))...))))..)))))((((((.((.....)))))))).(((......)))........ ( -36.50)
>DroSec_CAF1 26359 88 - 1
UAGUUUCCAUCAGAAGC----CGAUGCCU--CCAAUAAGGAGAUGAAAAUCCG---------------GGGAUCCGCAAAGGUGUUGCCCAGGCCCCACCCAAAAUGCA
..(((((.....)))))----.(((.(((--((.....)))(((....)))..---------------)).))).(((..((((..((....))..)))).....))). ( -21.80)
>DroSim_CAF1 27169 88 - 1
UAGUUUCCAUCAGAAGC----CGAUCCCU--CCAAUAAGGAGAUGAAAAUCCA---------------GGGAUCCGCAAAGGUGUUGCCCAGGCCCCACCCAAAAUGCA
..(((((.....)))))----.(((((((--((.....)))(((....)))..---------------)))))).(((..((((..((....))..)))).....))). ( -26.70)
>DroYak_CAF1 28107 88 - 1
UAGUUUCCAUCAGCAGC----CGAUCCCA--CCAAUAGGGAGAUGAAAAUCCA---------------GGGAUCCGCAAAGGUGUUGCCCAGGCUCCACCCAAAAUGCA
............(((((----.((((((.--((....))(.(((....)))).---------------)))))).))...((((..((....))..)))).....))). ( -30.30)
>DroPer_CAF1 32154 102 - 1
CGAUUUCCAUCAGACUC----CGAGGCAACUCCUCGAGGGA---GAAAAUCCACCUCUGGAGGAGAGCAGCGUCCGCAAAGGUGUUGCCGGGGCUCCACCCAGAAAGCA
...(((((..(((((((----.((((.....)))))))(((---.....)))...))))..)))))((((((.((.....)))))))).(((......)))........ ( -36.50)
>consensus
UAGUUUCCAUCAGAAGC____CGAUCCCA__CCAAUAAGGAGAUGAAAAUCCA_______________GGGAUCCGCAAAGGUGUUGCCCAGGCCCCACCCAAAAUGCA
......................((((((..........(((........))).(((....))).....)))))).(((..((((..((....))..)))).....))). (-13.68 = -14.90 +   1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:40 2006