Locus 4909

Sequence ID	2L_DroMel_CAF1
Location	14,049,218 – 14,049,357
Length	139
Max. P	0.522175

overview

Window 9

Location	14,049,218 – 14,049,328
Length	110
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	86.73
Mean single sequence MFE	-29.63
Consensus MFE	-21.76
Energy contribution	-24.32
Covariance contribution	2.56
Combinations/Pair	1.11
Mean z-score	-2.61
Structure conservation index	0.73
SVM decision value	-0.03
SVM RNA-class probability	0.520401
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14049218 110 - 22407834
AUUUUCAAGUUGGCUUGUUUGCUGAUGUGCUGAGCAUGAGCACUCUUGCCUCGAAUGUUUAUGAAUAUUUUAUUUACAUAAGCCAGUAAUCAGCAUAUGAGUCCAUAUUG
.....(((..(((((..(.(((((((.(((((.((.((((((....)).)))).((((..((((.....))))..))))..)))))))))))))).)..)).)))..))) ( -32.90)
>DroSec_CAF1 138093 110 - 1
AUUUUCAAGUUGGCUUGUUUGCUGAUGUGCUGAGCAUGAGCACUCUUGCCUCGAAUGUUUAUGAAUAUUUUAUUUACAUAAGCCAGUAAUCAGCAUAUGAGUCCAUAUUG
.....(((..(((((..(.(((((((.(((((.((.((((((....)).)))).((((..((((.....))))..))))..)))))))))))))).)..)).)))..))) ( -32.90)
>DroSim_CAF1 141301 110 - 1
AUUUUCAAGUUGGCUUGUUUGCUGAUGUGCUGAGCACGAGCACUCUUGCCUCGAAUGUUUAUGAAUAUUUUAUUUACAUAAGCCAGUAAUCAGCAUAUGAGUCCAUAUUG
.....(((..(((((..(.(((((((.(((((.((.((((((....)).)))).((((..((((.....))))..))))..)))))))))))))).)..)).)))..))) ( -34.90)
>DroEre_CAF1 140269 110 - 1
AUUUACAAGUUGGCUUGUUUGCUGAUGUGCUGAGCAUGAGCACUCUUGCCUCGAAUGUUUAUGAAUAUUUUAUUUACGUAAGCCAGUAAUCAGCAUAUGAGUCCAUAUUG
.....(((..(((((..(.(((((((.(((((.((.((((((....)).)))).((((..((((.....))))..))))..)))))))))))))).)..)).)))..))) ( -32.90)
>DroYak_CAF1 147842 110 - 1
AUUUUCAAGUUGGCUUGGUUGCAGAUGUGCUGAGCAUGAGCACUCUUGCCUCGAAUGUUUAUGAAUAUUUUAUUUACGUAAGCCAGUAAUCAGCAUAUGAGUCCAUAUUG
....(((((....)))))..((..(((((((((.((((((((.((.......)).))))))))..........((((........)))))))))))))..))........ ( -25.50)
>DroAna_CAF1 136245 91 - 1
GUUUUA-----G--------GCCGCUGCUC------CGAGCACACUUGCUUUAAAUGUUUAUGAAUUUUUCAUUCACAUAUGGCUGUAAUCAGCAGAUGAGUGCAUAUUA
......-----.--------...((.((((------.(((((....)))))...((((..((((.....))))..))))...((((....))))....))))))...... ( -18.70)
>consensus
AUUUUCAAGUUGGCUUGUUUGCUGAUGUGCUGAGCAUGAGCACUCUUGCCUCGAAUGUUUAUGAAUAUUUUAUUUACAUAAGCCAGUAAUCAGCAUAUGAGUCCAUAUUG
...........(((((((.(((((((.(((((.((.((((((....))).))).((((..((((.....))))..))))..)))))))))))))).)))))))....... (-21.76 = -24.32 +   2.56)

alignment

secondary structure

dotplot

Window 0

Location	14,049,254 – 14,049,357
Length	103
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	85.05
Mean single sequence MFE	-19.77
Consensus MFE	-13.49
Energy contribution	-14.43
Covariance contribution	0.95
Combinations/Pair	1.15
Mean z-score	-2.59
Structure conservation index	0.68
SVM decision value	-0.02
SVM RNA-class probability	0.522175
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14049254 103 + 22407834
AAUAAAAUAUUCAUAAACAUUCGAGGCAAGAGUGCUCAUGCUCAGCACAUCAGCAAACAAGCCAACUUGAAAAUGGCUAAAAAUACUCAGACGAAUGAACAGA
.................((((((..((..(((((((.......))))).)).)).....(((((.........))))).............))))))...... ( -20.20)
>DroSec_CAF1 138129 103 + 1
AAUAAAAUAUUCAUAAACAUUCGAGGCAAGAGUGCUCAUGCUCAGCACAUCAGCAAACAAGCCAACUUGAAAAUGGCUAAAAAUACUCAGACGAAUGAACAGA
.................((((((..((..(((((((.......))))).)).)).....(((((.........))))).............))))))...... ( -20.20)
>DroSim_CAF1 141337 103 + 1
AAUAAAAUAUUCAUAAACAUUCGAGGCAAGAGUGCUCGUGCUCAGCACAUCAGCAAACAAGCCAACUUGAAAAUGGCUAAAAAUACUCAGACGAAUGAACAGA
.................((((((......(((((((.((((...))))...))).....(((((.........)))))......))))...))))))...... ( -20.20)
>DroEre_CAF1 140305 103 + 1
AAUAAAAUAUUCAUAAACAUUCGAGGCAAGAGUGCUCAUGCUCAGCACAUCAGCAAACAAGCCAACUUGUAAAUGGCUAAAAAUACUCAGACGAAUGAACAGA
.................((((((..((..(((((((.......))))).)).)).....(((((.........))))).............))))))...... ( -20.20)
>DroYak_CAF1 147878 103 + 1
AAUAAAAUAUUCAUAAACAUUCGAGGCAAGAGUGCUCAUGCUCAGCACAUCUGCAACCAAGCCAACUUGAAAAUGGCUAAAAAUACUCAGACGAAUGAACAGA
.................((((((..(((.(((((((.......))))).))))).....(((((.........))))).............))))))...... ( -23.00)
>DroAna_CAF1 136281 84 + 1
AAUGAAAAAUUCAUAAACAUUUAAAGCAAGUGUGCUCG------GAGCAGCGGC--------C-----UAAAACGCCUAAAAAUAACAGCUCGCAUACACAAA
.((((.....))))...............((((((...------((((.(((..--------.-----.....))).((....))...))))))))))..... ( -14.80)
>consensus
AAUAAAAUAUUCAUAAACAUUCGAGGCAAGAGUGCUCAUGCUCAGCACAUCAGCAAACAAGCCAACUUGAAAAUGGCUAAAAAUACUCAGACGAAUGAACAGA
.................((((((..((..(((((((.......))))).)).)).....(((((.........))))).............))))))...... (-13.49 = -14.43 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:48 2006