Locus 2116

Sequence ID	X_DroMel_CAF1
Location	5,734,737 – 5,734,848
Length	111
Max. P	0.865724

overview

Window 9

Location	5,734,737 – 5,734,848
Length	111
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.01
Mean single sequence MFE	-25.81
Consensus MFE	-16.18
Energy contribution	-17.10
Covariance contribution	0.92
Combinations/Pair	1.25
Mean z-score	-2.12
Structure conservation index	0.63
SVM decision value	0.32
SVM RNA-class probability	0.687703
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5734737 111 + 22224390
GAUUUUGUUGCAUUUUCAUUAAAAAAUUUCGAGUCAAAUGCAUUCGAGCAAAUUGCAUUCCACUUUUCGUUUUCUUU-------UCUUU--GCGCUGAAAUGGAAAUGCAAUUUGUUGCG
.........(((................(((((((....).))))))(((((((((((((((.(((.(((.......-------.....--)))..))).))).))))))))))))))). ( -26.70)
>DroSim_CAF1 8472 110 + 1
GAUUUUGUUGCAUUUUCAUUAAA-AAUUUCGAGUCAAAUGCAUUCGAGCAAAUUGCAUUCCACAUUUCGUUUUCUUU-------UCUUU--GCGCUGAAAUGGAAAUGCAAUUUGUUGCG
.........(((...........-....(((((((....).))))))((((((((((((.(.(((((((........-------.....--....)))))))).))))))))))))))). ( -25.73)
>DroEre_CAF1 8217 109 + 1
GAUUUGGUUGCGUUUUCACGAA--AUUUUUGAGUCAAAUGCAUUCGAGCAAAUUGCAUUCCAAAUUUCGUUUUCUUU-------UCUCA--GCGCUGAAAUGGAAAUGCAAUUUGUUGCG
(((..(((((((((((((((((--((((..(((((((.(((......)))..))).)))).))))))))).....((-------((...--.....)))).)))))))))))).)))... ( -26.20)
>DroYak_CAF1 9168 109 + 1
GAUUUUGUUGCAUUUUGAUGAA--AUUUUCGAGUUAAAUGCAUUCGAGCAAAUUGCAUUCCCCAUUUCGUUUUCUUU-------UCUUU--GCGCCGAAAUGGAAAUGCAAUUUGUUGCG
........(((((((...(((.--....)))....)))))))..(((((((((((((((..((((((((........-------.....--....)))))))).))))))))))))).)) ( -30.13)
>DroAna_CAF1 7219 108 + 1
GAUUUUGUUUUAUUUUCAUGAA----UUUUAAGAUAAAUGCAUUCGAGCAAAUUGCAU-CCACUUUUCGUUUUCUUU-------UUUGUAAAUGCUGAAAUGGAAAUGCAAUUUGUUGCG
...(((((((((..........----...))))))))).(((.....(((((((((((-(((.(((.(((((.(...-------...).)))))..))).))))..))))))))))))). ( -23.62)
>DroPer_CAF1 10274 118 + 1
AAUUUUUUCUUGUUUUUGAAAAACAGUUUUAAGAUGAAUGCAUUCAAGCAAAUUGCAUACCACUUUUGGUUUUUCUUUUGGAUUUUUUU--CCCUAGAAAUGGAAAUGCAAUUCGUUGCG
.((((..(((((...(((.....)))...))))).))))(((.....((.((((((((((((....)))).(((((...(((......)--))..))))).....)))))))).))))). ( -22.50)
>consensus
GAUUUUGUUGCAUUUUCAUGAA__AAUUUCGAGUCAAAUGCAUUCGAGCAAAUUGCAUUCCACAUUUCGUUUUCUUU_______UCUUU__GCGCUGAAAUGGAAAUGCAAUUUGUUGCG
........(((((((...((((.....))))....)))))))....((((((((((((((((..(((((..........................)))))))).)))))))))))))... (-16.18 = -17.10 +   0.92)

alignment

secondary structure

dotplot

Window 0

Location	5,734,737 – 5,734,848
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.01
Mean single sequence MFE	-23.42
Consensus MFE	-14.36
Energy contribution	-14.89
Covariance contribution	0.53
Combinations/Pair	1.05
Mean z-score	-2.91
Structure conservation index	0.61
SVM decision value	0.85
SVM RNA-class probability	0.865724
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5734737 111 - 22224390
CGCAACAAAUUGCAUUUCCAUUUCAGCGC--AAAGA-------AAAGAAAACGAAAAGUGGAAUGCAAUUUGCUCGAAUGCAUUUGACUCGAAAUUUUUUAAUGAAAAUGCAACAAAAUC
((...(((((((((((.((((((...((.--.....-------........))..)))))))))))))))))..))..(((((((....................)))))))........ ( -23.59)
>DroSim_CAF1 8472 110 - 1
CGCAACAAAUUGCAUUUCCAUUUCAGCGC--AAAGA-------AAAGAAAACGAAAUGUGGAAUGCAAUUUGCUCGAAUGCAUUUGACUCGAAAUU-UUUAAUGAAAAUGCAACAAAAUC
((...(((((((((((((((((((.....--.....-------.........)))))).)))))))))))))..))..(((((((...........-........)))))))........ ( -26.02)
>DroEre_CAF1 8217 109 - 1
CGCAACAAAUUGCAUUUCCAUUUCAGCGC--UGAGA-------AAAGAAAACGAAAUUUGGAAUGCAAUUUGCUCGAAUGCAUUUGACUCAAAAAU--UUCGUGAAAACGCAACCAAAUC
.((..(((((((((((((.(((((....(--(....-------..)).....)))))..)))))))))))))(.((((....((((...))))...--)))).).....))......... ( -22.70)
>DroYak_CAF1 9168 109 - 1
CGCAACAAAUUGCAUUUCCAUUUCGGCGC--AAAGA-------AAAGAAAACGAAAUGGGGAAUGCAAUUUGCUCGAAUGCAUUUAACUCGAAAAU--UUCAUCAAAAUGCAACAAAAUC
.(((.((((((((((((((((((((...(--.....-------...)....)))))).)))))))))))))).((((...........))))....--..........)))......... ( -28.90)
>DroAna_CAF1 7219 108 - 1
CGCAACAAAUUGCAUUUCCAUUUCAGCAUUUACAAA-------AAAGAAAACGAAAAGUGG-AUGCAAUUUGCUCGAAUGCAUUUAUCUUAAAA----UUCAUGAAAAUAAAACAAAAUC
.(((.(((((((((..(((((((...(.(((.(...-------...).))).)..))))))-))))))))))......))).............----...................... ( -16.30)
>DroPer_CAF1 10274 118 - 1
CGCAACGAAUUGCAUUUCCAUUUCUAGGG--AAAAAAAUCCAAAAGAAAAACCAAAAGUGGUAUGCAAUUUGCUUGAAUGCAUUCAUCUUAAAACUGUUUUUCAAAAACAAGAAAAAAUU
..(((((((((((((.....(((((..((--(......)))...))))).((((....)))))))))))))).))).....................((((((........))))))... ( -23.00)
>consensus
CGCAACAAAUUGCAUUUCCAUUUCAGCGC__AAAGA_______AAAGAAAACGAAAAGUGGAAUGCAAUUUGCUCGAAUGCAUUUAACUCAAAAAU__UUCAUGAAAAUGCAACAAAAUC
.(((.((((((((((((((.((((............................)))).).)))))))))))))......)))....................................... (-14.36 = -14.89 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:38 2006