Locus 2168

Sequence ID	X_DroMel_CAF1
Location	5,877,044 – 5,877,183
Length	139
Max. P	0.941203

overview

Window 1

Location	5,877,044 – 5,877,151
Length	107
Sequences	3
Columns	107
Reading direction	reverse
Mean pairwise identity	91.59
Mean single sequence MFE	-29.13
Consensus MFE	-24.47
Energy contribution	-25.03
Covariance contribution	0.57
Combinations/Pair	1.14
Mean z-score	-3.29
Structure conservation index	0.84
SVM decision value	1.32
SVM RNA-class probability	0.941203
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5877044 107 - 22224390
GUUGUACUGAAGUUCAGUAUACUCUUCUUAAGGUAAGCUAUUCUUCUGAAUUGCUUAUUGUAUGUGCUCAUAUUUUUCUCUCAGUGCCUGGGCACCCUGCUGCUUUU
..(((((((.....)))))))..........(((((((.((((....)))).)))))))(((.(((((((((((........))))..)))))))..)))....... ( -25.40)
>DroSec_CAF1 81784 107 - 1
GUUGUACUGAAGUUGAGUAUACUCUUCUUUAGAGAAGCUAUUUUUUUGAAUAGCUGAUUGUAUAUGCUCAUACUUUUCUCUCAGUGCCUGGGCACCCUGCUGCUUUU
...((((((((((((((((((((((.....)))).((((((((....)))))))).......)))))))).)))......)))))))..(((((......))))).. ( -31.30)
>DroSim_CAF1 84503 107 - 1
AUUGUAUUGAAGUUGAGUAUACUCCUCUUCAGGGAAGCUAUUCUUUUGAAUAGCUUAUUGUAUGUGCUCAUAUUUUUCUCUCAGUGCCUGGGCACCCUGCUGCUUUU
...(((.(((((..(((....)))..)))))((((((((((((....))))))))).......(((((((((((........))))..))))))))))..))).... ( -30.70)
>consensus
GUUGUACUGAAGUUGAGUAUACUCUUCUUAAGGGAAGCUAUUCUUUUGAAUAGCUUAUUGUAUGUGCUCAUAUUUUUCUCUCAGUGCCUGGGCACCCUGCUGCUUUU
...((((((((((((((((((((((.....))))(((((((((....)))))))))......)))))))).)))......)))))))..(((((......))))).. (-24.47 = -25.03 +   0.57)

alignment

secondary structure

dotplot

Window 2

Location	5,877,077 – 5,877,183
Length	106
Sequences	3
Columns	106
Reading direction	forward
Mean pairwise identity	90.25
Mean single sequence MFE	-21.20
Consensus MFE	-16.16
Energy contribution	-16.50
Covariance contribution	0.34
Combinations/Pair	1.12
Mean z-score	-2.54
Structure conservation index	0.76
SVM decision value	0.37
SVM RNA-class probability	0.710440
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5877077 106 + 22224390
AAUAUGAGCACAUACAAUAAGCAAUUCAGAAGAAUAGCUUACCUUAAGAAGAGUAUACUGAACUUCAGUACAACUAUUGUACUUUAAGUUUGUAAAUAAACUAUGA
..........((((...(((((.((((....)))).)))))..............(((.((((((.((((((.....))))))..))))))))).......)))). ( -18.80)
>DroSec_CAF1 81817 106 + 1
AGUAUGAGCAUAUACAAUCAGCUAUUCAAAAAAAUAGCUUCUCUAAAGAAGAGUAUACUCAACUUCAGUACAACUAUUGUAUUUUAAGUUUGUAAAUGAACUAUGA
..((..(((..(((((((.(((((((......)))))))...((.(((..(((....)))..))).)).......))))))).....)))..))............ ( -17.60)
>DroSim_CAF1 84536 106 + 1
AAUAUGAGCACAUACAAUAAGCUAUUCAAAAGAAUAGCUUCCCUGAAGAGGAGUAUACUCAACUUCAAUACAAUUAUUGUAUUUUAAGUUUGUAAAUGAACUAUGA
..((..(((..((((((((((((((((....))))))).....(((((..(((....)))..)))))......))))))))).....)))..))............ ( -27.20)
>consensus
AAUAUGAGCACAUACAAUAAGCUAUUCAAAAGAAUAGCUUCCCUAAAGAAGAGUAUACUCAACUUCAGUACAACUAUUGUAUUUUAAGUUUGUAAAUGAACUAUGA
..((..(((.........(((((((((....))))))))).......((((((....))...))))((((((.....))))))....)))..))............ (-16.16 = -16.50 +   0.34)

alignment

secondary structure

dotplot

Window 3

Location	5,877,077 – 5,877,183
Length	106
Sequences	3
Columns	106
Reading direction	reverse
Mean pairwise identity	90.25
Mean single sequence MFE	-25.00
Consensus MFE	-20.56
Energy contribution	-20.90
Covariance contribution	0.34
Combinations/Pair	1.16
Mean z-score	-3.13
Structure conservation index	0.82
SVM decision value	1.20
SVM RNA-class probability	0.930121
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5877077 106 - 22224390
UCAUAGUUUAUUUACAAACUUAAAGUACAAUAGUUGUACUGAAGUUCAGUAUACUCUUCUUAAGGUAAGCUAUUCUUCUGAAUUGCUUAUUGUAUGUGCUCAUAUU
....(((((......)))))...((((((..(((.((((((.....))))))))).....((..((((((.((((....)))).))))))..))))))))...... ( -23.40)
>DroSec_CAF1 81817 106 - 1
UCAUAGUUCAUUUACAAACUUAAAAUACAAUAGUUGUACUGAAGUUGAGUAUACUCUUCUUUAGAGAAGCUAUUUUUUUGAAUAGCUGAUUGUAUAUGCUCAUACU
......((((..(((((.((...........))))))).))))((((((((((((((.....)))).((((((((....)))))))).......)))))))).)). ( -23.60)
>DroSim_CAF1 84536 106 - 1
UCAUAGUUCAUUUACAAACUUAAAAUACAAUAAUUGUAUUGAAGUUGAGUAUACUCCUCUUCAGGGAAGCUAUUCUUUUGAAUAGCUUAUUGUAUGUGCUCAUAUU
.....(..(((.(((((.(((..((((((.....))))))((((..(((....)))..))))))).(((((((((....))))))))).))))).)))..)..... ( -28.00)
>consensus
UCAUAGUUCAUUUACAAACUUAAAAUACAAUAGUUGUACUGAAGUUGAGUAUACUCUUCUUAAGGGAAGCUAUUCUUUUGAAUAGCUUAUUGUAUGUGCUCAUAUU
.....(..(((.(((((........((((.....))))((((((..(((....)))..))))))..(((((((((....))))))))).))))).)))..)..... (-20.56 = -20.90 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:45 2006