Locus 6717

Sequence ID	X_DroMel_CAF1
Location	16,743,413 – 16,743,586
Length	173
Max. P	0.552427

overview

Window 7

Location	16,743,413 – 16,743,513
Length	100
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.97
Mean single sequence MFE	-24.74
Consensus MFE	-17.69
Energy contribution	-18.44
Covariance contribution	0.75
Combinations/Pair	1.03
Mean z-score	-1.48
Structure conservation index	0.71
SVM decision value	0.04
SVM RNA-class probability	0.552427
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16743413 100 - 22224390
ACGAAUAUAUACGAGCACGGGUAUUUGCCUUAGCGCCCCGGCUACCGCACUUGAAUGUUUAAUAACCUUUUCAAGUUCACUGCCUCGCUGCGUUGUAUCA--------------------
........(((((((((((((((...((..((((......))))..))(((((((.(((....)))...)))))))....)))).)).))).))))))..-------------------- ( -25.90)
>DroSec_CAF1 30821 100 - 1
ACGAAUAUAUACGAGCACGGGUAUUUGCCUUAGCGCCCCGGCUACCGCACUUGAAUGUUUAAUAACCUUUUCAAGUUCACUGCCUCGCUGCGUUGUAUCA--------------------
........(((((((((((((((...((..((((......))))..))(((((((.(((....)))...)))))))....)))).)).))).))))))..-------------------- ( -25.90)
>DroEre_CAF1 22229 99 - 1
ACGAAUAUAUACGAGCACGGGUAUUUGCCUUAGCGCC-CGACUACCGCACUUGAAUUCUUAAUAACCUUUUCAAGUUCACUGCCUCGUAUCGUUGUAUCA--------------------
((((....(((((((((((((..((......))..))-))......(.(((((((..............))))))).)..)).)))))))..))))....-------------------- ( -24.14)
>DroYak_CAF1 22268 120 - 1
ACGAAUAUAUACGAGCACGGGUAUUUGCCUUAGCGCCCCGACUACCGCACUUGAAUUUUUAAUAACCUUUUCAAGUUCACUGCCUCGUAUCGUUGUAUCAUUGUAUCAUUGUAUCAUUGU
((((....(((((((((((((....(((....))).))))......(.(((((((..............))))))).)..)).)))))))..))))........................ ( -23.04)
>consensus
ACGAAUAUAUACGAGCACGGGUAUUUGCCUUAGCGCCCCGACUACCGCACUUGAAUGUUUAAUAACCUUUUCAAGUUCACUGCCUCGCAGCGUUGUAUCA____________________
..((.((((.((((((..(((((...((..((((......))))..))(((((((..............)))))))....))))).))).)))))))))..................... (-17.69 = -18.44 +   0.75)

alignment

secondary structure

dotplot

Window 8

Location	16,743,473 – 16,743,586
Length	113
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	89.27
Mean single sequence MFE	-38.40
Consensus MFE	-31.62
Energy contribution	-32.62
Covariance contribution	1.00
Combinations/Pair	1.03
Mean z-score	-1.38
Structure conservation index	0.82
SVM decision value	-0.02
SVM RNA-class probability	0.524126
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16743473 113 + 22224390
CGGGGCGCUAAGGCAAAUACCCGUGCUCGUAUAUAUUCGUAGCUGUCUGACCCACAUGGGUGUCGCCGGAUCGGCCAGAUAAAUGAGCCUAUAUGUGCACAGUUA-------UGGCCAAC
...(((((....))........((((.((((((..(((((...((((((((((....))))...((((...)))))))))).)))))..)))))).)))).....-------..)))... ( -39.00)
>DroSec_CAF1 30881 107 + 1
CGGGGCGCUAAGGCAAAUACCCGUGCUCGUAUAUAUUCGUCGCUGUCUGACCCACAUGGGUGUCGCCGGAUCGGCCAGAUAAAUGAGCCUAUAUGUGCACAGUUA-------UG------
.(((..((....)).....)))((((.((((((..(((((...((((((((((....))))...((((...)))))))))).)))))..)))))).)))).....-------..------ ( -37.50)
>DroEre_CAF1 22289 119 + 1
CG-GGCGCUAAGGCAAAUACCCGUGCUCGUAUAUAUUCGUCGCUGUCUGACCCACAUGGGUGUCGCCGGAUCGGCCAGAUAAAUAGCGCUAUAUGUGCACAGUUAUGUGCUAUAAGCGGC
((-(((((...((......)).))))))).........(((((((((((((((....))))...((((...)))))))))..(((((((....((....)).....))))))).)))))) ( -42.50)
>DroYak_CAF1 22348 113 + 1
CGGGGCGCUAAGGCAAAUACCCGUGCUCGUAUAUAUUCGUCGCUGUCUGACCCACAUGGGUGUCGCCAGAUCGGCCAGAUAAAUAGCCCUAUAUGUGCACAGUUA-------UAGCCAAC
...(((((....))........((((.((((((((((..((((((((((((((....)))).....)))).))))..))..))))....)))))).)))).....-------..)))... ( -34.60)
>consensus
CGGGGCGCUAAGGCAAAUACCCGUGCUCGUAUAUAUUCGUCGCUGUCUGACCCACAUGGGUGUCGCCGGAUCGGCCAGAUAAAUAACCCUAUAUGUGCACAGUUA_______UAGCCAAC
.(((..((....)).....)))((((.((((((..(((((...((((((((((....))))...(((.....))))))))).)))))..)))))).)))).................... (-31.62 = -32.62 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:39 2006