Locus 1453

Sequence ID	X_DroMel_CAF1
Location	4,378,615 – 4,378,709
Length	94
Max. P	0.999410

overview

Window 9

Location	4,378,615 – 4,378,709
Length	94
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	77.68
Mean single sequence MFE	-23.22
Consensus MFE	-17.25
Energy contribution	-17.45
Covariance contribution	0.20
Combinations/Pair	1.25
Mean z-score	-2.62
Structure conservation index	0.74
SVM decision value	2.69
SVM RNA-class probability	0.996379
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4378615 94 + 22224390
GAUUUCUGAUACAAAUGAAUAUCUUUGGUAU---UUAGA----GAUU---CGUUAACAAUUCAUUCAGAUAUUCAUGUAUAGAGUCAGAGAGGUUUCACUGUAA
..((((((((.(..((((((((((.(((...---((((.----....---..))))....)))...)))))))))).....).))))))))............. ( -17.00)
>DroSec_CAF1 163903 93 + 1
GAUCUCUGACACAAAUGAACAUCUUUGAUAU---UUUGC----GAUU---CGUGAACAAUUCAUU-AGAUAUUCAAGUGUAGAGUCAGAGAGGUUUCACUGUAA
..(((((((((((..((((.((((.(((...---((..(----(...---))..))....)))..-)))).))))..)))...))))))))............. ( -24.60)
>DroSim_CAF1 151353 93 + 1
GAUCUCUGACACAAAUGAAUAUCUUUGGUAU---UUUGC----GAUU---AGUAAACAAUUCAUU-AGAUAUUCAAGUGUAGAGUCAGAGAGGUUUCACUGUAA
..(((((((((((..(((((((((.(((...---(((((----....---.)))))....)))..-)))))))))..)))...))))))))............. ( -28.20)
>DroEre_CAF1 174692 95 + 1
AAUCUCUGACACAAAUGAAUAUCUUUGCCAC---UCUGCUCGCAACUAAGCGUAAA-----CACU-AGAUAUUCAUGAUUAGAGUCAGAGAGGUUUCACUGUAU
..((((((((.(..((((((((((..((...---...)).(((......)))....-----....-)))))))))).....).))))))))............. ( -24.90)
>DroYak_CAF1 167161 95 + 1
AUUCUCUGACACAAAUGAAUAUCUAUGCCAUGAAGCUGUUCAAAACU---CGUGUU-----AAUU-AGAUAUUCAUGAAUAGAGUCAGAAAGGUUUCACUGUAU
....((((((.(..(((((((((((...(((((.............)---))))..-----...)-)))))))))).....).))))))............... ( -21.42)
>consensus
GAUCUCUGACACAAAUGAAUAUCUUUGCUAU___UUUGC____GAUU___CGUAAACAAUUCAUU_AGAUAUUCAUGUAUAGAGUCAGAGAGGUUUCACUGUAA
..((((((((.(..((((((((((..........(((((............)))))..........)))))))))).....).))))))))............. (-17.25 = -17.45 +   0.20)

alignment

secondary structure

dotplot

Window 0

Location	4,378,615 – 4,378,709
Length	94
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	77.68
Mean single sequence MFE	-23.17
Consensus MFE	-16.39
Energy contribution	-17.35
Covariance contribution	0.96
Combinations/Pair	1.14
Mean z-score	-3.28
Structure conservation index	0.71
SVM decision value	3.58
SVM RNA-class probability	0.999410
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4378615 94 - 22224390
UUACAGUGAAACCUCUCUGACUCUAUACAUGAAUAUCUGAAUGAAUUGUUAACG---AAUC----UCUAA---AUACCAAAGAUAUUCAUUUGUAUCAGAAAUC
...(((.((....)).)))..(((((((((((((((((....((.(((....))---).))----.....---.......)))))))))..))))).))).... ( -16.89)
>DroSec_CAF1 163903 93 - 1
UUACAGUGAAACCUCUCUGACUCUACACUUGAAUAUCU-AAUGAAUUGUUCACG---AAUC----GCAAA---AUAUCAAAGAUGUUCAUUUGUGUCAGAGAUC
.............((((((((...(((..(((((((((-..(((.((((.....---....----)))).---...))).)))))))))..))))))))))).. ( -23.60)
>DroSim_CAF1 151353 93 - 1
UUACAGUGAAACCUCUCUGACUCUACACUUGAAUAUCU-AAUGAAUUGUUUACU---AAUC----GCAAA---AUACCAAAGAUAUUCAUUUGUGUCAGAGAUC
.............((((((((...(((..(((((((((-......((((.....---....----)))).---.......)))))))))..))))))))))).. ( -22.44)
>DroEre_CAF1 174692 95 - 1
AUACAGUGAAACCUCUCUGACUCUAAUCAUGAAUAUCU-AGUG-----UUUACGCUUAGUUGCGAGCAGA---GUGGCAAAGAUAUUCAUUUGUGUCAGAGAUU
.............((((((((.(.....((((((((((-((((-----....))))..((..(.......---)..))..))))))))))..).)))))))).. ( -29.60)
>DroYak_CAF1 167161 95 - 1
AUACAGUGAAACCUUUCUGACUCUAUUCAUGAAUAUCU-AAUU-----AACACG---AGUUUUGAACAGCUUCAUGGCAUAGAUAUUCAUUUGUGUCAGAGAAU
.............((((((((.(.....((((((((((-(...-----(((...---.))).......(((....))).)))))))))))..).)))))))).. ( -23.30)
>consensus
UUACAGUGAAACCUCUCUGACUCUACACAUGAAUAUCU_AAUGAAUUGUUCACG___AAUC____GCAAA___AUACCAAAGAUAUUCAUUUGUGUCAGAGAUC
.............((((((((...(((.((((((((((..........................................)))))))))).))))))))))).. (-16.39 = -17.35 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:48 2006