Locus 5897

Sequence ID	3L_DroMel_CAF1
Location	15,843,099 – 15,843,243
Length	144
Max. P	0.987596

overview

Window 9

Location	15,843,099 – 15,843,218
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	92.27
Mean single sequence MFE	-31.44
Consensus MFE	-28.06
Energy contribution	-28.46
Covariance contribution	0.40
Combinations/Pair	1.14
Mean z-score	-1.75
Structure conservation index	0.89
SVM decision value	1.93
SVM RNA-class probability	0.982947
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15843099 119 + 23771897
UGUUCUUAAUCUUAAAAAACAACUUAAUCUUUCGAAAUGGCAAUUUUCCGACUCCCUUCUUUGAGUGUACUCGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCU
......................((((((.(((((((((....)))))(((((.((((((..((((....))))..)))))).))))).....)))).))))))(((((.....))))). ( -34.80)
>DroSec_CAF1 50186 119 + 1
UGUUCUUAAUCUUAAAAAACAACUUAAUCUUUCGAAAUGGCAAUUCUCCGACUCCCUUCUUCAAGUGUACUUGCUGAGGGGCGUUGGCCAAAGAGAAAUUAGGGGAUGUCACCCAUCCU
......................((((((.((((....((((.......((((.((((((..((((....))))..)))))).))))))))..)))).))))))(((((.....))))). ( -35.21)
>DroSim_CAF1 51401 119 + 1
UGCUCUUAAUCUUAAAAAACAACUUAAUCUUUCGAAAUGGCAAUUCUCCGACUCCCUUCUUCGAGUGUACUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCU
......................((((((.(((((((.......))).(((((.((((((..((((....))))..)))))).))))).....)))).))))))(((((.....))))). ( -33.60)
>DroEre_CAF1 49326 119 + 1
UGUUCUUGAUCUUAAAAAACAACUUAAUCUUUCGAAAUAGCCAUUUCGUGACUCCCUUCUCUGAGUGUACUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCU
((((.((.......)).)))).((((((.(((((((((....)))))..(((.((((((..((((....))))..)))))).))).......)))).))))))(((((.....))))). ( -29.50)
>DroYak_CAF1 91560 119 + 1
UGUUUUGGAUCUUAAAAAACAACUUAAUCUUUAAAAAUAGCAAUUUCGUGACUCCCUUCGUUAAGUGUAGUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCU
((((((.........)))))).((((((((((.......((......))(((.(((((((.(((......))).))))))).)))......)))))..)))))(((((.....))))). ( -24.10)
>consensus
UGUUCUUAAUCUUAAAAAACAACUUAAUCUUUCGAAAUGGCAAUUUUCCGACUCCCUUCUUUGAGUGUACUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCU
......................((((((.(((((((((....)))))(((((.((((((..((((....))))..)))))).))))).....)))).))))))(((((.....))))). (-28.06 = -28.46 +   0.40)

alignment

secondary structure

dotplot

Window 0

Location	15,843,139 – 15,843,243
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	94.23
Mean single sequence MFE	-36.71
Consensus MFE	-32.98
Energy contribution	-33.10
Covariance contribution	0.12
Combinations/Pair	1.13
Mean z-score	-1.77
Structure conservation index	0.90
SVM decision value	2.09
SVM RNA-class probability	0.987596
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15843139 104 + 23771897
CAAUUUUCCGACUCCCUUCUUUGAGUGUACUCGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCUGGCAGGAUGCAGUUACCAGCUGCAG
...(((((((((.((((((..((((....))))..)))))).))))).)))).........(((.......)))((((.....))))(((((.....))))).. ( -38.30)
>DroSec_CAF1 50226 104 + 1
CAAUUCUCCGACUCCCUUCUUCAAGUGUACUUGCUGAGGGGCGUUGGCCAAAGAGAAAUUAGGGGAUGUCACCCAUCCUGGCAGGAUGCAGUUACCAGCUGCAG
..(((((.((((.((((((..((((....))))..)))))).))))(((...((....))..((((((.....))))))))))))))(((((.....))))).. ( -39.70)
>DroSim_CAF1 51441 104 + 1
CAAUUCUCCGACUCCCUUCUUCGAGUGUACUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCUGGCAGGAUGCAGUUACCAGCUGCAG
...(((((((((.((((((..((((....))))..)))))).)))))....))))......(((.......)))((((.....))))(((((.....))))).. ( -37.50)
>DroEre_CAF1 49366 104 + 1
CCAUUUCGUGACUCCCUUCUCUGAGUGUACUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCUGGCAGGAUGCAGUUACCAGCUGCAG
.......(((((((((((((((...(((...((((....))))...)))..))))).....))))).)))))..((((.....))))(((((.....))))).. ( -36.70)
>DroYak_CAF1 91600 104 + 1
CAAUUUCGUGACUCCCUUCGUUAAGUGUAGUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCUGGCAGGAUGCAGUUACCAGCUGCAG
.......(((((((((((.(((........((((..(......)..))))......))).)))))).)))))..((((.....))))(((((.....))))).. ( -31.34)
>consensus
CAAUUUUCCGACUCCCUUCUUUGAGUGUACUUGCUGAGGGGCGUUGGCAAAAGAGAAAUUAGGGGAUGUCACCCAUCCUGGCAGGAUGCAGUUACCAGCUGCAG
...(((.(((((.((((((..((((....))))..)))))).))))).)))..........(((.......)))((((.....))))(((((.....))))).. (-32.98 = -33.10 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:14 2006