Locus 2719

Sequence ID	2L_DroMel_CAF1
Location	7,630,196 – 7,630,308
Length	112
Max. P	0.959506

overview

Window 7

Location	7,630,196 – 7,630,308
Length	112
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	88.10
Mean single sequence MFE	-29.58
Consensus MFE	-22.40
Energy contribution	-23.46
Covariance contribution	1.06
Combinations/Pair	1.10
Mean z-score	-2.79
Structure conservation index	0.76
SVM decision value	1.50
SVM RNA-class probability	0.959506
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7630196 112 + 22407834
CUCGGCUGCUAAGUAACUAAUUUUAUGGCAUAUUAGCAGACCAUUAAUUAUGCCGGUGUUAUAAAUUUUAAUGCCGAUUAAUUGCUGCCAAAACAUAG-C-----AACACAACCAGCG--
...(((((((((....(((......)))....))))))).)).........((((((((((.......)))))))).....((((((........)))-)-----))........)).-- ( -26.80)
>DroPse_CAF1 163693 120 + 1
CUCGGCUGCUAAGUAACUAAUUUUAUGGCAUAUUAGCAGACCAUUAAUUAUGGCAGCGUUAUAAAUUUUAAUGCCGAUUAAUUGCUGCCAAAACACCGGCCAGAAACAGCAAAAGCCAAA
...(((((((((....(((......)))....))))))).))........((((.((((((.......)))))).......((((((((........))).......)))))..)))).. ( -30.81)
>DroAna_CAF1 135793 114 + 1
CUUGGCGGCUAAGUAACUAAUUUUAUGGCAUAUUAGCAGACCAUUAAUUAUGCCGGUGUUAUAAAUUUUAAUGCCGAUUAAUUGCUGCCAAAACACGG-C-----AAAGCAAACGGCAAC
..((((.(((((....(((......)))....))))).).))).......(((((((((((.......)))))))......((((((((.......))-)-----..)))))..)))).. ( -29.90)
>DroPer_CAF1 159774 120 + 1
CUCGGCUGCUAAGUAACUAAUUUUAUGGCAUAUUAGCAGACCAUUAAUUAUGGCAGCGUUAUAAAUUUUAAUGCCGAUUAAUUGCUGCCAAAACACCGGCCAGAAACAGCAAAAGCCAAA
...(((((((((....(((......)))....))))))).))........((((.((((((.......)))))).......((((((((........))).......)))))..)))).. ( -30.81)
>consensus
CUCGGCUGCUAAGUAACUAAUUUUAUGGCAUAUUAGCAGACCAUUAAUUAUGCCAGCGUUAUAAAUUUUAAUGCCGAUUAAUUGCUGCCAAAACACCG_C_____AAAGCAAAAGCCAAA
...(((((((((....(((......)))....))))))).))........(((((((((((.......)))))))......((((((...................))))))..)))).. (-22.40 = -23.46 +   1.06)

alignment

secondary structure

dotplot

Window 8

Location	7,630,196 – 7,630,308
Length	112
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	88.10
Mean single sequence MFE	-30.39
Consensus MFE	-19.37
Energy contribution	-19.55
Covariance contribution	0.19
Combinations/Pair	1.17
Mean z-score	-1.91
Structure conservation index	0.64
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7630196 112 - 22407834
--CGCUGGUUGUGUU-----G-CUAUGUUUUGGCAGCAAUUAAUCGGCAUUAAAAUUUAUAACACCGGCAUAAUUAAUGGUCUGCUAAUAUGCCAUAAAAUUAGUUACUUAGCAGCCGAG
--.((((((((((((-----(-(((.....))))))))..)))))))).................((((.(((((.(((((.((....)).)))))..)))))(((....))).)))).. ( -30.60)
>DroPse_CAF1 163693 120 - 1
UUUGGCUUUUGCUGUUUCUGGCCGGUGUUUUGGCAGCAAUUAAUCGGCAUUAAAAUUUAUAACGCUGCCAUAAUUAAUGGUCUGCUAAUAUGCCAUAAAAUUAGUUACUUAGCAGCCGAG
.((((((...((((.....(((((..(((.(((((((..........................))))))).)))...))))).((((((.(......).))))))....)))))))))). ( -31.67)
>DroAna_CAF1 135793 114 - 1
GUUGCCGUUUGCUUU-----G-CCGUGUUUUGGCAGCAAUUAAUCGGCAUUAAAAUUUAUAACACCGGCAUAAUUAAUGGUCUGCUAAUAUGCCAUAAAAUUAGUUACUUAGCCGCCAAG
..(((((.(((((..-----(-(((.....))))))))).....)))))................((((.((((((((.....((......))......))))))))....))))..... ( -27.60)
>DroPer_CAF1 159774 120 - 1
UUUGGCUUUUGCUGUUUCUGGCCGGUGUUUUGGCAGCAAUUAAUCGGCAUUAAAAUUUAUAACGCUGCCAUAAUUAAUGGUCUGCUAAUAUGCCAUAAAAUUAGUUACUUAGCAGCCGAG
.((((((...((((.....(((((..(((.(((((((..........................))))))).)))...))))).((((((.(......).))))))....)))))))))). ( -31.67)
>consensus
UUUGCCGUUUGCUGU_____G_CGGUGUUUUGGCAGCAAUUAAUCGGCAUUAAAAUUUAUAACACCGCCAUAAUUAAUGGUCUGCUAAUAUGCCAUAAAAUUAGUUACUUAGCAGCCGAG
...(((..(((((((.................)))))))......(((.(((.......))).))))))........(((.(((((((...((.(......).))...)))))))))).. (-19.37 = -19.55 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:35 2006