Locus 3753

Sequence ID	3R_DroMel_CAF1
Location	10,176,801 – 10,176,891
Length	90
Max. P	0.976868

overview

Window 4

Location	10,176,801 – 10,176,891
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	95.40
Mean single sequence MFE	-21.18
Consensus MFE	-19.25
Energy contribution	-20.12
Covariance contribution	0.86
Combinations/Pair	1.05
Mean z-score	-1.76
Structure conservation index	0.91
SVM decision value	1.78
SVM RNA-class probability	0.976868
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10176801 90 + 27905053
AAAUGGCAGCCAUUCGGCAGCCAAAUCUGCAGAGCACACAAACAUUACGUGGCUAUUUCGAGCGCAGCAUUUAAGCUCUUCAAUCUACAA
...((((.(((....))).))))....((.(((((.(((.........)))(((......)))...........))))).))........ ( -23.20)
>DroSec_CAF1 35118 90 + 1
AAAUGGCAGCCAUUCGGCAGCCAAAUCUGCAGAGCACACAAACAUUACGUGGCUAUUUCGAGCGCAGCAUUUAAGCUCUUCAAUCUACAA
...((((.(((....))).))))....((.(((((.(((.........)))(((......)))...........))))).))........ ( -23.20)
>DroSim_CAF1 34312 90 + 1
AAAUGGCAGCCAUUCGGCAGCCAAAUCUGCAGAGCACACAAACAUUACGUGGCUAUUUCGAGCGCAGCAUUUAAGCUCUUCAAUCUACAA
...((((.(((....))).))))....((.(((((.(((.........)))(((......)))...........))))).))........ ( -23.20)
>DroEre_CAF1 35733 89 + 1
AAAUGGCAGCCAUUCGGC-GCCAAAUCUGCAGAGCACACAAACAUUACGUGGCUAUUUCGAGCGCAGCAUUUAAGCUCUUCAAUCUACAA
...((((.(((....)))-))))....((.(((((.(((.........)))(((......)))...........))))).))........ ( -22.90)
>DroYak_CAF1 35285 89 + 1
AAAUGGCAGCCAUUCGGA-GCCAAAUCUGCAGAGCACACAAACAUUACGUGGCUAUUUCGAGCGCAGCAUUUAAGCUCUUCAAUCUACAA
...((((..((....)).-))))....((.(((((.(((.........)))(((......)))...........))))).))........ ( -18.80)
>DroAna_CAF1 31399 89 + 1
AAAUGGCAGCCAUUCAA-AGCCAAAUCUUGGGAGCACACAAACAUUACGUAGCUAUUUUGAGCGGAGCAGUUAAGCUCUUCAAUCUACAA
...((((..........-.))))....(((........))).......((((.....((((..(((((......))))))))).)))).. ( -15.80)
>consensus
AAAUGGCAGCCAUUCGGCAGCCAAAUCUGCAGAGCACACAAACAUUACGUGGCUAUUUCGAGCGCAGCAUUUAAGCUCUUCAAUCUACAA
...((((.(((....))).))))....((.(((((.(((.........)))(((......)))...........))))).))........ (-19.25 = -20.12 +   0.86)

alignment

secondary structure

dotplot

Window 5

Location	10,176,801 – 10,176,891
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	95.40
Mean single sequence MFE	-24.87
Consensus MFE	-23.79
Energy contribution	-24.07
Covariance contribution	0.28
Combinations/Pair	1.14
Mean z-score	-1.11
Structure conservation index	0.96
SVM decision value	1.05
SVM RNA-class probability	0.906835
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10176801 90 - 27905053
UUGUAGAUUGAAGAGCUUAAAUGCUGCGCUCGAAAUAGCCACGUAAUGUUUGUGUGCUCUGCAGAUUUGGCUGCCGAAUGGCUGCCAUUU
(((((((((((.((((......))).)..))))....((((((.......)))).)))))))))...((((.(((....))).))))... ( -27.70)
>DroSec_CAF1 35118 90 - 1
UUGUAGAUUGAAGAGCUUAAAUGCUGCGCUCGAAAUAGCCACGUAAUGUUUGUGUGCUCUGCAGAUUUGGCUGCCGAAUGGCUGCCAUUU
(((((((((((.((((......))).)..))))....((((((.......)))).)))))))))...((((.(((....))).))))... ( -27.70)
>DroSim_CAF1 34312 90 - 1
UUGUAGAUUGAAGAGCUUAAAUGCUGCGCUCGAAAUAGCCACGUAAUGUUUGUGUGCUCUGCAGAUUUGGCUGCCGAAUGGCUGCCAUUU
(((((((((((.((((......))).)..))))....((((((.......)))).)))))))))...((((.(((....))).))))... ( -27.70)
>DroEre_CAF1 35733 89 - 1
UUGUAGAUUGAAGAGCUUAAAUGCUGCGCUCGAAAUAGCCACGUAAUGUUUGUGUGCUCUGCAGAUUUGGC-GCCGAAUGGCUGCCAUUU
(((((((((((.((((......))).)..))))....((((((.......)))).)))))))))...((((-(((....))).))))... ( -26.70)
>DroYak_CAF1 35285 89 - 1
UUGUAGAUUGAAGAGCUUAAAUGCUGCGCUCGAAAUAGCCACGUAAUGUUUGUGUGCUCUGCAGAUUUGGC-UCCGAAUGGCUGCCAUUU
(((((((((((.((((......))).)..))))....((((((.......)))).)))))))))...((((-.((....))..))))... ( -23.20)
>DroAna_CAF1 31399 89 - 1
UUGUAGAUUGAAGAGCUUAACUGCUCCGCUCAAAAUAGCUACGUAAUGUUUGUGUGCUCCCAAGAUUUGGCU-UUGAAUGGCUGCCAUUU
..((((......((((......))))((.(((((..(((((((.......)))).))).(((.....))).)-)))).)).))))..... ( -16.20)
>consensus
UUGUAGAUUGAAGAGCUUAAAUGCUGCGCUCGAAAUAGCCACGUAAUGUUUGUGUGCUCUGCAGAUUUGGCUGCCGAAUGGCUGCCAUUU
(((((((((((.((((......))).)..))))....((((((.......)))).)))))))))...((((.(((....))).))))... (-23.79 = -24.07 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:13 2006