Locus 4784

Sequence ID	X_DroMel_CAF1
Location	12,427,584 – 12,427,702
Length	118
Max. P	0.872385

overview

Window 9

Location	12,427,584 – 12,427,702
Length	118
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	90.51
Mean single sequence MFE	-30.48
Consensus MFE	-22.44
Energy contribution	-22.84
Covariance contribution	0.40
Combinations/Pair	1.14
Mean z-score	-2.37
Structure conservation index	0.74
SVM decision value	0.88
SVM RNA-class probability	0.872385
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12427584 118 + 22224390
UUACUGUUUGCAUUGCCUAGACUCUAAUCUUUUUAUCACUUAGCCGUAAAUAUUGGCCAUAAAUGUUUGUGGGUAUUAUAAAAUGGUUAUCUACUUGCGGAAGCGAUAAGAAGUUAUU
(((..(((((.......)))))..))).(((((((((...(((((((..(((.((.((((((....)))))).)).)))...))))))).......((....)))))))))))..... ( -27.90)
>DroSec_CAF1 936 118 + 1
UUACUGUUUGCAUUGCCUAGGCUCUAAUCUUUUUAUCACUUAGCCGUAAAUAUUGGCCAUAAAUGUUUGUGGGCAUUAUAAAAUGGUUAUCUACUUGCGGAAGCGAUAAGAAGUUAUU
..............((....))..(((.(((((((((...(((((((..(((.((.((((((....)))))).)).)))...))))))).......((....)))))))))))))).. ( -31.30)
>DroSim_CAF1 6437 118 + 1
UUACUGUUUGCAUUGCCUAGGCUCUAAUCUUUUUAUCACUUAGCCGUAAAUAUUGGCCAUAAAUGUUUGUGGGCAUUAUAAAAUGGUUAUCUACUUGCGGAAGCGAUAAGAAGUUAUU
..............((....))..(((.(((((((((...(((((((..(((.((.((((((....)))))).)).)))...))))))).......((....)))))))))))))).. ( -31.30)
>DroEre_CAF1 1126 118 + 1
UUACUUUUUGUAUUCGCUAGGCUCUAAUCUAUUUAUCGCUUUGCCGUAGAUCUUGGCUAUAAAUGUUUGUGGGCCUUAUAAAGUUGUUAUCUACGUGCGGAAGCGAUAAGAAGCUGAU
.(((.....))).......((((....(((...(((((((((((((((((((((((((((((....)))).)))).....))).....))))))).)).))))))))))))))))... ( -28.90)
>DroYak_CAF1 6617 118 + 1
UUACUUUUUGUAUUCUUUAGGCUCUAAUCUUUUUAUCACUUAGCCGUAAAUAUUGCCUAUAAAUGUUUGUGGGCAUUAUAAAGUGGUUAUCUACGUGCGGAAGUGAUAAGAAACUAGU
.(((.....))).................(((((((((((...(((((.(((.(((((((((....))))))))).)))...((((....)))).))))).)))))))))))...... ( -33.00)
>consensus
UUACUGUUUGCAUUGCCUAGGCUCUAAUCUUUUUAUCACUUAGCCGUAAAUAUUGGCCAUAAAUGUUUGUGGGCAUUAUAAAAUGGUUAUCUACUUGCGGAAGCGAUAAGAAGUUAUU
............................(((((((((...(((((((..(((.((.((((((....)))))).)).)))...))))))).......((....)))))))))))..... (-22.44 = -22.84 +   0.40)

alignment

secondary structure

dotplot

Window 0

Location	12,427,584 – 12,427,702
Length	118
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	90.51
Mean single sequence MFE	-23.11
Consensus MFE	-15.94
Energy contribution	-15.22
Covariance contribution	-0.72
Combinations/Pair	1.20
Mean z-score	-2.10
Structure conservation index	0.69
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12427584 118 - 22224390
AAUAACUUCUUAUCGCUUCCGCAAGUAGAUAACCAUUUUAUAAUACCCACAAACAUUUAUGGCCAAUAUUUACGGCUAAGUGAUAAAAAGAUUAGAGUCUAGGCAAUGCAAACAGUAA
.....(((.((((((((((((.(((((.....((((......................))))....))))).)))..))))))))).)))......((....)).............. ( -18.95)
>DroSec_CAF1 936 118 - 1
AAUAACUUCUUAUCGCUUCCGCAAGUAGAUAACCAUUUUAUAAUGCCCACAAACAUUUAUGGCCAAUAUUUACGGCUAAGUGAUAAAAAGAUUAGAGCCUAGGCAAUGCAAACAGUAA
.....(((.((((((((((((.(((((.....((((.....((((........)))).))))....))))).)))..))))))))).)))......((....)).............. ( -23.20)
>DroSim_CAF1 6437 118 - 1
AAUAACUUCUUAUCGCUUCCGCAAGUAGAUAACCAUUUUAUAAUGCCCACAAACAUUUAUGGCCAAUAUUUACGGCUAAGUGAUAAAAAGAUUAGAGCCUAGGCAAUGCAAACAGUAA
.....(((.((((((((((((.(((((.....((((.....((((........)))).))))....))))).)))..))))))))).)))......((....)).............. ( -23.20)
>DroEre_CAF1 1126 118 - 1
AUCAGCUUCUUAUCGCUUCCGCACGUAGAUAACAACUUUAUAAGGCCCACAAACAUUUAUAGCCAAGAUCUACGGCAAAGCGAUAAAUAGAUUAGAGCCUAGCGAAUACAAAAAGUAA
....((...(((((((((..((.(((((((.......(((((((...........))))))).....))))))))).))))))))).(((........)))))............... ( -24.90)
>DroYak_CAF1 6617 118 - 1
ACUAGUUUCUUAUCACUUCCGCACGUAGAUAACCACUUUAUAAUGCCCACAAACAUUUAUAGGCAAUAUUUACGGCUAAGUGAUAAAAAGAUUAGAGCCUAAAGAAUACAAAAAGUAA
.(((((((.(((((((((..((.((((((((....((....((((........))))...))....)))))))))).)))))))))..)))))))....................... ( -25.30)
>consensus
AAUAACUUCUUAUCGCUUCCGCAAGUAGAUAACCAUUUUAUAAUGCCCACAAACAUUUAUGGCCAAUAUUUACGGCUAAGUGAUAAAAAGAUUAGAGCCUAGGCAAUGCAAACAGUAA
.....(((.(((((((((..((..(((((((......((((((.............))))))....))))))).)).))))))))).)))................(((.....))). (-15.94 = -15.22 +  -0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:04 2006