Locus 358

Sequence ID	3L_DroMel_CAF1
Location	1,043,186 – 1,043,278
Length	92
Max. P	0.605407

overview

Window 7

Location	1,043,186 – 1,043,278
Length	92
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	82.18
Mean single sequence MFE	-28.68
Consensus MFE	-17.35
Energy contribution	-17.83
Covariance contribution	0.48
Combinations/Pair	1.18
Mean z-score	-1.88
Structure conservation index	0.60
SVM decision value	0.13
SVM RNA-class probability	0.597780
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1043186 92 + 23771897
UGCCACAUAGU--AAAAUCGGAAAGCCUCAAUUUCCUGUGGCUACGACUGUCCGUCAAGCCGCAAAAUGACCGCGGCAGGAUAAUGG------CGUCUAA
.((((......--....(((...((((.((......)).)))).))).(((((.....(((((.........))))).))))).)))------)...... ( -28.50)
>DroSec_CAF1 17859 88 + 1
UGCCACAUAGUCGAAAAUCGGAAAGCCUCAAUUUCCUGUGGCUUCGACUGUCCGCCAA------------ACGCGGCAGGAUAAUGGCGAACGCGUCUAA
.((((...(((((((.((.(((((.......))))).))...)))))))(((((((..------------....))).))))..))))............ ( -27.90)
>DroSim_CAF1 18620 88 + 1
UGCCACAUAGUCGAAAAUCGGAAAGCCUCAAUUUCCUGUGGCUUCGACUGUCCGCCAA------------CCGCGGCAGGAUAAUGGCAAACGCGUCUAA
(((((...(((((((.((.(((((.......))))).))...)))))))(((((((..------------....))).))))..)))))........... ( -28.60)
>DroEre_CAF1 20905 98 + 1
UACCACAUGGU--AAAAGCAGAAAGCCCCAACUUCCUGCGGUUUCGACUGUCCGUAAAGCCGCAAAAUAACCGCGGCAGGAUAAUGGCGAACGCGUCUAA
((((....)))--)...((((.(((......))).))))......((((((((.....(((((.........))))).)))))...((....)))))... ( -28.10)
>DroYak_CAF1 18591 98 + 1
UGCCACAUGGU--AAAAUCGGAAAGCCCCAAUUUCCUGCGGUUUUGACUGUCCGUCAAGCCGCAAAAUAACCGCGGCAGGAUAAUGGCGAACGCGUCUAA
((((...((((--......(((((.......)))))((((((((.(((.....))))))))))).....)))).)))).......((((....))))... ( -30.30)
>consensus
UGCCACAUAGU__AAAAUCGGAAAGCCUCAAUUUCCUGUGGCUUCGACUGUCCGUCAAGCCGCAAAAU_ACCGCGGCAGGAUAAUGGCGAACGCGUCUAA
(((((............(((..(((((.((......)).))))))))(((.((((.................))))))).....)))))........... (-17.35 = -17.83 +   0.48)

alignment

secondary structure

dotplot

Window 8

Location	1,043,186 – 1,043,278
Length	92
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	82.18
Mean single sequence MFE	-32.61
Consensus MFE	-17.73
Energy contribution	-20.18
Covariance contribution	2.45
Combinations/Pair	1.14
Mean z-score	-2.09
Structure conservation index	0.54
SVM decision value	0.15
SVM RNA-class probability	0.605407
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1043186 92 - 23771897
UUAGACG------CCAUUAUCCUGCCGCGGUCAUUUUGCGGCUUGACGGACAGUCGUAGCCACAGGAAAUUGAGGCUUUCCGAUUUU--ACUAUGUGGCA
...(((.------((.(((....(((((((.....))))))).))).))...)))...((((((.(((((((........)))))))--....)))))). ( -33.10)
>DroSec_CAF1 17859 88 - 1
UUAGACGCGUUCGCCAUUAUCCUGCCGCGU------------UUGGCGGACAGUCGAAGCCACAGGAAAUUGAGGCUUUCCGAUUUUCGACUAUGUGGCA
...(((..((((((((..............------------.)))))))).)))...((((((((((((((........)))))))).....)))))). ( -31.06)
>DroSim_CAF1 18620 88 - 1
UUAGACGCGUUUGCCAUUAUCCUGCCGCGG------------UUGGCGGACAGUCGAAGCCACAGGAAAUUGAGGCUUUCCGAUUUUCGACUAUGUGGCA
...(((..((((((((....((......))------------.)))))))).)))...((((((((((((((........)))))))).....)))))). ( -31.60)
>DroEre_CAF1 20905 98 - 1
UUAGACGCGUUCGCCAUUAUCCUGCCGCGGUUAUUUUGCGGCUUUACGGACAGUCGAAACCGCAGGAAGUUGGGGCUUUCUGCUUUU--ACCAUGUGGUA
...(((..(((((....((....(((((((.....)))))))..))))))).)))......(((((((((....)))))))))...(--(((....)))) ( -33.20)
>DroYak_CAF1 18591 98 - 1
UUAGACGCGUUCGCCAUUAUCCUGCCGCGGUUAUUUUGCGGCUUGACGGACAGUCAAAACCGCAGGAAAUUGGGGCUUUCCGAUUUU--ACCAUGUGGCA
...(((..(((((.((.......(((((((.....))))))).)).))))).)))....(((((.(((((((((....)))))))))--....))))).. ( -34.10)
>consensus
UUAGACGCGUUCGCCAUUAUCCUGCCGCGGU_AUUUUGCGGCUUGACGGACAGUCGAAGCCACAGGAAAUUGAGGCUUUCCGAUUUU__ACUAUGUGGCA
...(((((....)).....(((.(((((((.....))))))).....)))..)))...((((((.(((((((........)))))))......)))))). (-17.73 = -20.18 +   2.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:59 2006