Locus 599

Sequence ID	2L_DroMel_CAF1
Location	1,811,511 – 1,811,602
Length	91
Max. P	0.793517

overview

Window 4

Location	1,811,511 – 1,811,602
Length	91
Sequences	3
Columns	99
Reading direction	forward
Mean pairwise identity	82.35
Mean single sequence MFE	-28.93
Consensus MFE	-20.32
Energy contribution	-20.54
Covariance contribution	0.23
Combinations/Pair	1.08
Mean z-score	-2.04
Structure conservation index	0.70
SVM decision value	0.59
SVM RNA-class probability	0.793517
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1811511 91 + 22407834
UCCCCU--------UCCUCUGGAUCUCCUCCAAUAACUUGGGGAAUCUCCUAAUAUGGCAGAAGAACUGCCUCCGGUCGUGACAAUCUGUUCAGGUGGA
((((((--------.(..(((((..(((.((((....)))))))............(((((.....))))))))))..).(((.....))).))).))) ( -24.70)
>DroSim_CAF1 8435 91 + 1
UCCACU--------UCCUCUGGAUCUCCUCCAAUAACUUGGGGGAUCUCCAUAUAUGGCAGAGGAACUGCCUCCGGUUGUGGCAAUAUGCUCAGGUGGC
.(((((--------(((((((....((((((((....))))))))...(((....))))))))))..((((.........)))).........))))). ( -33.20)
>DroEre_CAF1 19970 98 + 1
UCCACUUCCUCACUUCCUCUGGAUCUCCUCCAAUAACUUUGGGAGUCUCCA-AUAUGGCAGAGCAACUGCCUCCGGCCAGGACCAUCUGCUCAGGUGGA
..............(((((((((.((((..(((.....)))))))......-....(((((.....))))))))))..))))((((((....)))))). ( -28.90)
>consensus
UCCACU________UCCUCUGGAUCUCCUCCAAUAACUUGGGGAAUCUCCA_AUAUGGCAGAGGAACUGCCUCCGGUCGUGACAAUCUGCUCAGGUGGA
.(((((........((..(((((..(((.((((....)))))))............(((((.....))))))))))....))...........))))). (-20.32 = -20.54 +   0.23)

alignment

secondary structure

dotplot

Window 5

Location	1,811,511 – 1,811,602
Length	91
Sequences	3
Columns	99
Reading direction	reverse
Mean pairwise identity	82.35
Mean single sequence MFE	-31.47
Consensus MFE	-23.80
Energy contribution	-24.13
Covariance contribution	0.34
Combinations/Pair	1.12
Mean z-score	-1.78
Structure conservation index	0.76
SVM decision value	0.37
SVM RNA-class probability	0.707215
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1811511 91 - 22407834
UCCACCUGAACAGAUUGUCACGACCGGAGGCAGUUCUUCUGCCAUAUUAGGAGAUUCCCCAAGUUAUUGGAGGAGAUCCAGAGGA--------AGGGGA
(((.(((((........))....((...(((((.....)))))......(((..((((((((....)))).)))).)))...)).--------)))))) ( -28.40)
>DroSim_CAF1 8435 91 - 1
GCCACCUGAGCAUAUUGCCACAACCGGAGGCAGUUCCUCUGCCAUAUAUGGAGAUCCCCCAAGUUAUUGGAGGAGAUCCAGAGGA--------AGUGGA
.((((.........(((((.(.....).)))))(((((((((((....))).((((((((((....)))).)).)))))))))))--------))))). ( -34.80)
>DroEre_CAF1 19970 98 - 1
UCCACCUGAGCAGAUGGUCCUGGCCGGAGGCAGUUGCUCUGCCAUAU-UGGAGACUCCCAAAGUUAUUGGAGGAGAUCCAGAGGAAGUGAGGAAGUGGA
(((((((....))....((((.((....(((((.....)))))...(-((((..(((((((.....)))..)))).))))).....)).)))).))))) ( -31.20)
>consensus
UCCACCUGAGCAGAUUGUCACGACCGGAGGCAGUUCCUCUGCCAUAU_UGGAGAUUCCCCAAGUUAUUGGAGGAGAUCCAGAGGA________AGUGGA
.((((....((.....)).....((...(((((.....)))))......(((..((((((((....)))).)))).)))...))..........)))). (-23.80 = -24.13 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:39 2006