Locus 6692

Sequence ID	X_DroMel_CAF1
Location	16,719,224 – 16,719,368
Length	144
Max. P	0.951396

overview

Window 1

Location	16,719,224 – 16,719,335
Length	111
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	81.79
Mean single sequence MFE	-37.40
Consensus MFE	-27.51
Energy contribution	-29.95
Covariance contribution	2.44
Combinations/Pair	1.18
Mean z-score	-1.49
Structure conservation index	0.74
SVM decision value	-0.02
SVM RNA-class probability	0.523923
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16719224 111 - 22224390
GAUGUUUCCACUGGGCUUGCUUCUUCUGCUGGAGUAGUA---------GUAGUGGCUUCACUUGAAGGAGUAGCGACAUUCGCAGGAGUAACUCCAUCACCUGGCGUGGUUUUGUCCGCU
..........(..((..(((((((((...((((((....---------......))))))...)))))))))(((.....))).((((...))))....))..).((((......)))). ( -33.20)
>DroSec_CAF1 682 114 - 1
GAUGUUUCCACUGGGGUUGCUUCUUCCACUGGAGUAGUUAUAACUGCUGUAGUGGCUUCACUUGAAGGAGUAGCGACAUU------AGUAACUCCAUCACCUGGCGUGGUCUUGUCCGCU
((((.....(((((.((((((.(((((((((.((((((....)))))).))))))((((....))))))).)))))).))------))).....)))).......((((......)))). ( -41.00)
>DroSim_CAF1 601 114 - 1
GAUGUUUCCACUGGGGUUGCUUCUUCCGCUGGAGUAGUUAUAACUGCUGUAGUGGCUUCACUUGAAGGAGUAGCGACAUC------AGUAACUCCAUCAUCUGGCGUGGUCUUGUCCGCU
((((.....((((..((((((.(((((((((.((((((....)))))).))))))((((....))))))).))))))..)------))).....)))).......((((......)))). ( -42.90)
>DroEre_CAF1 628 117 - 1
---GUUUCCAAUGGAGUUGCUUCUUCCGCUAGAGUAGUUACAACUACAGUACUGACUUUAUUUGAAGCAGUCACGACAUCCGCAGGCGUAACUCCACCAGCUGGCGUGGUUUGGUCCGCU
---(((.....(((((((((.(((...((....(((((....))))).((((((.((((....)))))))).)).......))))).)))))))))......)))((((......)))). ( -32.50)
>consensus
GAUGUUUCCACUGGGGUUGCUUCUUCCGCUGGAGUAGUUAUAACUGCUGUAGUGGCUUCACUUGAAGGAGUAGCGACAUC______AGUAACUCCAUCACCUGGCGUGGUCUUGUCCGCU
...(((.....((((((((((((..((((((.(((((......))))).))))))((((....)))).................))))))))))))......)))((((......)))). (-27.51 = -29.95 +   2.44)

alignment

secondary structure

dotplot

Window 2

Location	16,719,264 – 16,719,368
Length	104
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	76.04
Mean single sequence MFE	-31.85
Consensus MFE	-19.36
Energy contribution	-21.05
Covariance contribution	1.69
Combinations/Pair	1.20
Mean z-score	-2.14
Structure conservation index	0.61
SVM decision value	1.41
SVM RNA-class probability	0.951396
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16719264 104 - 22224390
--UCAUUUGCUGGAGUAGCAUUAUUUUCUGAAGACGAUGUUUCCACUGGGCUUGCUUCUUCUGCUGGAGUAGUA---------GUAGUGGCUUCACUUGAAGGAGUAGCGACAUU
--....(((((((((..((((..(((.....)))..))))))))).......(((((((((...((((((....---------......))))))...))))))))))))).... ( -26.30)
>DroSec_CAF1 716 105 - 1
----------UGGAGUUGCUUUAUUCUCUGAAGGAGAUGUUUCCACUGGGGUUGCUUCUUCCACUGGAGUAGUUAUAACUGCUGUAGUGGCUUCACUUGAAGGAGUAGCGACAUU
----------((..((((((((.(((..(((((((((.((..((.....))..)).))))((((((.((((((....)))))).)))))))))))...)))))))))))..)).. ( -38.80)
>DroSim_CAF1 635 105 - 1
----------UGGAGUUGCUUUAUUCUCUGAAGACGAUGUUUCCACUGGGGUUGCUUCUUCCGCUGGAGUAGUUAUAACUGCUGUAGUGGCUUCACUUGAAGGAGUAGCGACAUC
----------((..((((((((.(((..(((((..((.((..((.....))..)).))..((((((.((((((....)))))).)))))))))))...)))))))))))..)).. ( -36.30)
>DroEre_CAF1 668 106 - 1
CUUCAUUCGCUGAAGUAGCUUUAUUCUCU---------GUUUCCAAUGGAGUUGCUUCUUCCGCUAGAGUAGUUACAACUACAGUACUGACUUUAUUUGAAGCAGUCACGACAUC
........((.((((((((((((((....---------......))))))))))))))....))....(((((....))))).((((((.((((....)))))))).))...... ( -26.00)
>consensus
__________UGGAGUAGCUUUAUUCUCUGAAGACGAUGUUUCCACUGGGGUUGCUUCUUCCGCUGGAGUAGUUAUAACUGCUGUAGUGGCUUCACUUGAAGGAGUAGCGACAUC
...........((((..........))))......(((((((((...)))(((((((((((...((((((..(((((.....)))))..))))))...))))))))))))))))) (-19.36 = -21.05 +   1.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:05 2006