Locus 2133

Sequence ID	3L_DroMel_CAF1
Location	5,825,189 – 5,825,302
Length	113
Max. P	0.999503

overview

Window 1

Location	5,825,189 – 5,825,302
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	93.34
Mean single sequence MFE	-32.00
Consensus MFE	-30.64
Energy contribution	-30.42
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.19
Structure conservation index	0.96
SVM decision value	3.66
SVM RNA-class probability	0.999503
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5825189 113 + 23771897
GUGUUGAUAUCCCGCCAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCAUCGGCAUCGCU-------
.............(((.(((((......)))))...((((((((((...(((((.....)).....(((((......)))))........))).)))))))))))))......------- ( -34.20)
>DroPse_CAF1 36645 105 + 1
GUGUUGAUAUCCCGCGAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCAUCG---------------
(((((....((.((((...)))).)).)))))...(((((((((((...(((((.....)).....(((((......)))))........))).)))))))))))--------------- ( -30.60)
>DroGri_CAF1 42729 105 + 1
GUGUUGAUAUCCCGCGAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCGUCG---------------
(((((....((.((((...)))).)).)))))...(((((((((((...(((((.....)).....(((((......)))))........))).)))))))))))--------------- ( -30.20)
>DroMoj_CAF1 39709 105 + 1
GUGUUGAUAUCCCGCGAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCGUCG---------------
(((((....((.((((...)))).)).)))))...(((((((((((...(((((.....)).....(((((......)))))........))).)))))))))))--------------- ( -30.20)
>DroAna_CAF1 35596 120 + 1
GUGUUGAUAUCCCGCGAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCAUCGGCAUCGCUGCCCAAA
.............((((.((((((....))))...(((((((((((...(((((.....)).....(((((......)))))........))).))))))))))))).))))........ ( -36.20)
>DroPer_CAF1 36555 105 + 1
GUGUUGAUAUCCCGCGAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCAUCG---------------
(((((....((.((((...)))).)).)))))...(((((((((((...(((((.....)).....(((((......)))))........))).)))))))))))--------------- ( -30.60)
>consensus
GUGUUGAUAUCCCGCGAAGCGUGUGAAGACGCUAACGAUGCCGCCAAAACUUGUUAACCACAAAAAUUAUUGCAUGAGAUGAAAUAAAUUAAGGUGGCGGCAUCG_______________
(((((....((.(((.....))).)).)))))...(((((((((((...(((((.....)).....(((((......)))))........))).)))))))))))............... (-30.64 = -30.42 +  -0.22)

alignment

secondary structure

dotplot

Window 2

Location	5,825,189 – 5,825,302
Length	113
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	93.34
Mean single sequence MFE	-30.72
Consensus MFE	-27.72
Energy contribution	-28.05
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.37
Structure conservation index	0.90
SVM decision value	2.69
SVM RNA-class probability	0.996405
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5825189 113 - 23771897
-------AGCGAUGCCGAUGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUGGCGGGAUAUCAACAC
-------...((((((((((((((((.......(((((.(((...))).)))))..(((((.....)))))...))))))))))((((((((......)))).)))).)).))))..... ( -36.00)
>DroPse_CAF1 36645 105 - 1
---------------CGAUGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUCGCGGGAUAUCAACAC
---------------.((((((((((.......(((((.(((...))).)))))..(((((.....)))))...))))))))))((.(((((......)))))..))............. ( -29.50)
>DroGri_CAF1 42729 105 - 1
---------------CGACGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUCGCGGGAUAUCAACAC
---------------.((.(((((((.......(((((.(((...))).)))))..(((((.....)))))...))))))).((((.(((((......)))))..))))....))..... ( -26.50)
>DroMoj_CAF1 39709 105 - 1
---------------CGACGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUCGCGGGAUAUCAACAC
---------------.((.(((((((.......(((((.(((...))).)))))..(((((.....)))))...))))))).((((.(((((......)))))..))))....))..... ( -26.50)
>DroAna_CAF1 35596 120 - 1
UUUGGGCAGCGAUGCCGAUGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUCGCGGGAUAUCAACAC
.((((.(.((((...(((((((((((.......(((((.(((...))).)))))..(((((.....)))))...)))))))))))..(((((......)))))))))..)...))))... ( -36.30)
>DroPer_CAF1 36555 105 - 1
---------------CGAUGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUCGCGGGAUAUCAACAC
---------------.((((((((((.......(((((.(((...))).)))))..(((((.....)))))...))))))))))((.(((((......)))))..))............. ( -29.50)
>consensus
_______________CGAUGCCGCCACCUUAAUUUAUUUCAUCUCAUGCAAUAAUUUUUGUGGUUAACAAGUUUUGGCGGCAUCGUUAGCGUCUUCACACGCUUCGCGGGAUAUCAACAC
................((((((((((.......(((((.(((...))).)))))..(((((.....)))))...))))))))))((.(((((......)))))..))............. (-27.72 = -28.05 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:12 2006