Locus 4284

Sequence ID	3L_DroMel_CAF1
Location	12,548,288 – 12,548,410
Length	122
Max. P	0.997546

overview

Window 8

Location	12,548,288 – 12,548,385
Length	97
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	94.85
Mean single sequence MFE	-31.48
Consensus MFE	-30.01
Energy contribution	-29.57
Covariance contribution	-0.44
Combinations/Pair	1.11
Mean z-score	-1.82
Structure conservation index	0.95
SVM decision value	2.88
SVM RNA-class probability	0.997546
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12548288 97 + 23771897
CAAUGCGAUUAGAGCAAUGUUCGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUUGCAAAUGGAA
((((((.(((((.((...(((((((.......)))))))((((((((((....))))))))))((......)))))))))..))))))......... ( -32.20)
>DroSec_CAF1 36439 97 + 1
CAAUGCGAUUAGAGCAAUGUUCGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUUGCAAAUGGAA
((((((.(((((.((...(((((((.......)))))))((((((((((....))))))))))((......)))))))))..))))))......... ( -32.20)
>DroSim_CAF1 37673 97 + 1
CAAUGCGAUUAGAGCAAUGUUCGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUUGCAAAUGGAA
((((((.(((((.((...(((((((.......)))))))((((((((((....))))))))))((......)))))))))..))))))......... ( -32.20)
>DroEre_CAF1 37390 97 + 1
CAGUGCGAUUAGAGCAAUGUUCGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGUGUGGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUGGAA
.............(((..(((((((.......)))))))..)))..((((((((....).))))))).(((((((.......)))))))........ ( -31.00)
>DroYak_CAF1 37370 97 + 1
CAGUGCGAUUAGAGCGAUGUUCGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGUGUGGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUGGAA
.............(((..(((((((.......)))))))..)))..((((((((....).))))))).(((((((.......)))))))........ ( -30.30)
>DroAna_CAF1 34622 97 + 1
UUGUGCGAUCUGAGCUAUGUUUGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUUGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUUAAA
...(((((((((.((((((.....)))....)))))))))(((((((((....))))))))).)))..(((((((.......)))))))........ ( -31.00)
>consensus
CAAUGCGAUUAGAGCAAUGUUCGGCAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUGGAA
...(((............(((((((.......)))))))((((((((((....)))))))))))))..(((((((.......)))))))........ (-30.01 = -29.57 +  -0.44)

alignment

secondary structure

dotplot

Window 9

Location	12,548,312 – 12,548,410
Length	98
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	80.60
Mean single sequence MFE	-27.68
Consensus MFE	-17.35
Energy contribution	-16.55
Covariance contribution	-0.80
Combinations/Pair	1.24
Mean z-score	-2.03
Structure conservation index	0.63
SVM decision value	0.60
SVM RNA-class probability	0.795337
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12548312 98 + 23771897
CAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUUGCAAAUGGAAUUAUGUGCCAUAUGAAGUGCGAGUA
.((((((((((.....(((((((((....))))))))))))...(((((((.((((...(((.....)))..)))).)))))))......))))))). ( -30.50)
>DroPse_CAF1 37964 83 + 1
CAUUUU--------GUAUGCAAUUGUCACCGAUCGCGUCGGUAAGUGGCGCCUGAUAAGCGUCGCAAAUUAAAUAAAAUACAGUAUGAAAU-------
(((.((--------((((.........((((((...))))))..(((((((.......)))))))............)))))).)))....------- ( -22.50)
>DroSec_CAF1 36463 96 + 1
CAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUUGCAAAUGGAAUUAUGUGCUAUAUGAAGUGGUAG--
(((((((((((..((((((((((((....)))))))))(((........))).)))..).))))))))))........((((((.....)))))).-- ( -30.70)
>DroEre_CAF1 37414 97 + 1
CAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGUGUGGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUGGAAUUAUGUGGCAUAUGAAGUGCG-GCG
(((((((.(((.....(((((((((....)))))))))))).....(((((.......)))))))))))).......((.((((.....)))).-)). ( -32.70)
>DroAna_CAF1 34646 96 + 1
CAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUUGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUUAAAUUAUAUGCCGUAUGAAGUGCGAA--
..((((((((........(((((((....)))))))))))))))(((((((.......)))))))................(((((...)))))..-- ( -27.20)
>DroPer_CAF1 39242 83 + 1
CAUUUU--------GUAUGCAAUUGUCACCGAUCGCGUCGGUAAGUGGCGCCUGAUAAGCGUCGCAAAUUAAAUAAAAUACAGUAUGAAAU-------
(((.((--------((((.........((((((...))))))..(((((((.......)))))))............)))))).)))....------- ( -22.50)
>consensus
CAUUUGCAGCCGGAUUAUGCAAUUGUCACCGAUUGCGUGGCAAAGUGGCGCCUGAUAAGCGUCGCAAAUGAAAUUAUAUGCCAUAUGAAGUGCG_G__
(((.((..........(((((((((....)))))))))......(((((((.......)))))))................)).)))........... (-17.35 = -16.55 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:28 2006