Locus 4231

Sequence ID	X_DroMel_CAF1
Location	11,090,804 – 11,090,897
Length	93
Max. P	0.999513

overview

Window 1

Location	11,090,804 – 11,090,897
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	74.09
Mean single sequence MFE	-19.28
Consensus MFE	-5.22
Energy contribution	-6.62
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-1.86
Structure conservation index	0.27
SVM decision value	0.69
SVM RNA-class probability	0.822294
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11090804 93 + 22224390
AUCUACUUAACAAUAUUUAGGAAAUUUAAUAUGUUAUGCUGAUGGCAACACGGCGCAUGAGUAAUAUGUUAUAAAUCAUACGCCGCGUUGGCA
(((..(.(((((.((((..........))))))))).)..)))(.((((.(((((.((((((((....))))...)))).))))).)))).). ( -23.50)
>DroSec_CAF1 10527 93 + 1
AUCUACUUAACAAUAUUUAGGAAAUUUAAUAUGUUAUGCGAAUGCCAACACUGCGCAUGAGUAAUAUGUUAUAAAUCAUACGCCGUGUUGGCA
.......(((((.((((..........)))))))))......(((((((((.(((.((((((((....))))...)))).))).))))))))) ( -24.10)
>DroSim_CAF1 4905 76 + 1
AUCGGA-UUACUACAUUUAGAA--U--UAUAUGUA---UCGAUGCCAACA-UGCG-AUGAGUAUAGU----UAAAUCAUACGC-GUGU--GCA
(((((.-....(((((......--.--...)))))---)))))((..(((-((((-((((.......----....)))).)))-))))--)). ( -17.00)
>DroEre_CAF1 8369 93 + 1
AUGUGCUUAAAAAUAGUUGGGAAAUUCAAUAUGUUAUGCAGAAGACAAAUCAACGCAUAAGUAAUAUGUUAUUAAUCAUACGCCAUGUUGAAC
.....(((((......)))))...(((((((((((((((.(..((....))..)))))))....((((........))))...))))))))). ( -14.20)
>DroYak_CAF1 10787 93 + 1
AUGUACUUAAAAAUAUUUAAGAAAUUUAAUAUGCUAUCCAUAUGGCAACACAGCGCAUGAGUAAUAUGUUGUUAAUCAUACGCCAUGUUGACA
.....((((((....)))))).......(((((.....)))))..(((((..(((.((((.((((.....)))).)))).)))..)))))... ( -17.60)
>consensus
AUCUACUUAACAAUAUUUAGGAAAUUUAAUAUGUUAUGCAGAUGCCAACACAGCGCAUGAGUAAUAUGUUAUAAAUCAUACGCCGUGUUGGCA
.............................................(((((..(((.((((...............)))).)))..)))))... ( -5.22 =  -6.62 +   1.40)

alignment

secondary structure

dotplot

Window 2

Location	11,090,804 – 11,090,897
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	74.09
Mean single sequence MFE	-21.80
Consensus MFE	-15.88
Energy contribution	-18.08
Covariance contribution	2.20
Combinations/Pair	1.39
Mean z-score	-2.98
Structure conservation index	0.73
SVM decision value	3.67
SVM RNA-class probability	0.999513
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11090804 93 - 22224390
UGCCAACGCGGCGUAUGAUUUAUAACAUAUUACUCAUGCGCCGUGUUGCCAUCAGCAUAACAUAUUAAAUUUCCUAAAUAUUGUUAAGUAGAU
((.(((((((((((((((...(((...)))...))))))))))))))).))((.((.(((((((((..........)))).))))).)).)). ( -29.20)
>DroSec_CAF1 10527 93 - 1
UGCCAACACGGCGUAUGAUUUAUAACAUAUUACUCAUGCGCAGUGUUGGCAUUCGCAUAACAUAUUAAAUUUCCUAAAUAUUGUUAAGUAGAU
(((((((((.((((((((...(((...)))...)))))))).)))))))))((..(.(((((((((..........)))).))))).)..)). ( -29.60)
>DroSim_CAF1 4905 76 - 1
UGC--ACAC-GCGUAUGAUUUA----ACUAUACUCAU-CGCA-UGUUGGCAUCGA---UACAUAUA--A--UUCUAAAUGUAGUAA-UCCGAU
...--....-(((.((((....----.......))))-))).-.(((((.((...---(((((.((--.--...)).)))))...)-)))))) ( -11.40)
>DroEre_CAF1 8369 93 - 1
GUUCAACAUGGCGUAUGAUUAAUAACAUAUUACUUAUGCGUUGAUUUGUCUUCUGCAUAACAUAUUGAAUUUCCCAACUAUUUUUAAGCACAU
((((((.(((((((((((.(((((...))))).)))))))).....(((.....)))...))).))))))....................... ( -13.80)
>DroYak_CAF1 10787 93 - 1
UGUCAACAUGGCGUAUGAUUAACAACAUAUUACUCAUGCGCUGUGUUGCCAUAUGGAUAGCAUAUUAAAUUUCUUAAAUAUUUUUAAGUACAU
.(.(((((((((((((((.(((.......))).))))))))))))))).)(((((.....))))).......((((((....))))))..... ( -25.00)
>consensus
UGCCAACACGGCGUAUGAUUUAUAACAUAUUACUCAUGCGCAGUGUUGCCAUCUGCAUAACAUAUUAAAUUUCCUAAAUAUUGUUAAGUAGAU
((.(((((((((((((((...............))))))))))))))).))(((((.(((((((((..........))))).)))).))))). (-15.88 = -18.08 +   2.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:46 2006