Locus 6558

Sequence ID	2R_DroMel_CAF1
Location	20,511,545 – 20,511,638
Length	93
Max. P	0.996024

overview

Window 9

Location	20,511,545 – 20,511,638
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	90.97
Mean single sequence MFE	-26.38
Consensus MFE	-20.02
Energy contribution	-20.90
Covariance contribution	0.88
Combinations/Pair	1.04
Mean z-score	-2.40
Structure conservation index	0.76
SVM decision value	1.24
SVM RNA-class probability	0.934304
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20511545 93 + 20766785
CAAGUGCGAUUCUUUUAGAUGCCAACGCAGCCGCGCAAAAAGCACACGAAAUAUAUUAGGUAAUAUUAAGACUGCUUUUGAGCAAUUGCACCC
...((((((((........(((....)))...((...(((((((..(..(((((........)))))..)..)))))))..)))))))))).. ( -20.90)
>DroSec_CAF1 13060 93 + 1
CAAGUGCGAUUCUUUCAGCUGCCAACGCAGCCGCGCAAAAAGCACACGAAAUACAUUAGGUAAUAUUGAGACUGCUUUUGAGCAAUUGCACCC
...((((((((......(((((....))))).((...((((((((.(((..(((.....)))...))).)..)))))))..)))))))))).. ( -25.50)
>DroSim_CAF1 13037 93 + 1
CAAGUGCGAUUCUUUCAGCUGCCAACGCAGCCGCGCAAAAAGCACACGAAAUACAUUAGGUAAUAUUGAGACUGCUUUUGAGCAAUUGCACCC
...((((((((......(((((....))))).((...((((((((.(((..(((.....)))...))).)..)))))))..)))))))))).. ( -25.50)
>DroEre_CAF1 13179 93 + 1
CAAGUGCGAUUCUUUCGGCUGCCAACGCAGCCGAGCCAGAAGCAAACGGAAUACAUUAGGUAAUAUUAAAAGUGCCUUUGAGCAAUUGCACCC
...((((((((...((((((((....))))))))((((((.(((.....((((..........)))).....))).)))).)))))))))).. ( -32.00)
>DroYak_CAF1 13164 93 + 1
CAAGUGCGAUUCUUUCGGCUGCCAACGCAGCCAAGCAAACAGCAAGCGGAAUACAUUAGGUAAUAUUAAAAGUGCCUGUGAGCAAUUGCACCC
...(((((((((((((((((((....))))))..((.....))....)))...(((.(((((..........)))))))))).)))))))).. ( -28.00)
>consensus
CAAGUGCGAUUCUUUCAGCUGCCAACGCAGCCGCGCAAAAAGCACACGAAAUACAUUAGGUAAUAUUAAGACUGCUUUUGAGCAAUUGCACCC
...((((((((......(((((....)))))...((.(((((((.....((((..........)))).....)))))))..)))))))))).. (-20.02 = -20.90 +   0.88)

alignment

secondary structure

dotplot

Window 0

Location	20,511,545 – 20,511,638
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	90.97
Mean single sequence MFE	-29.08
Consensus MFE	-25.94
Energy contribution	-25.94
Covariance contribution	-0.00
Combinations/Pair	1.18
Mean z-score	-2.07
Structure conservation index	0.89
SVM decision value	2.64
SVM RNA-class probability	0.996024
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20511545 93 - 20766785
GGGUGCAAUUGCUCAAAAGCAGUCUUAAUAUUACCUAAUAUAUUUCGUGUGCUUUUUGCGCGGCUGCGUUGGCAUCUAAAAGAAUCGCACUUG
((((((...(((.(((..((((((...(((((....))))).......((((.....)))))))))).))))))((.....))...)))))). ( -26.50)
>DroSec_CAF1 13060 93 - 1
GGGUGCAAUUGCUCAAAAGCAGUCUCAAUAUUACCUAAUGUAUUUCGUGUGCUUUUUGCGCGGCUGCGUUGGCAGCUGAAAGAAUCGCACUUG
((((((....((..(((((((..(..(((((........)))))..)..))))))).)).(((((((....)))))))........)))))). ( -29.00)
>DroSim_CAF1 13037 93 - 1
GGGUGCAAUUGCUCAAAAGCAGUCUCAAUAUUACCUAAUGUAUUUCGUGUGCUUUUUGCGCGGCUGCGUUGGCAGCUGAAAGAAUCGCACUUG
((((((....((..(((((((..(..(((((........)))))..)..))))))).)).(((((((....)))))))........)))))). ( -29.00)
>DroEre_CAF1 13179 93 - 1
GGGUGCAAUUGCUCAAAGGCACUUUUAAUAUUACCUAAUGUAUUCCGUUUGCUUCUGGCUCGGCUGCGUUGGCAGCCGAAAGAAUCGCACUUG
((((((....((.((.(((((..(..(((((........)))))..)..))))).))))((((((((....)))))))).......)))))). ( -32.10)
>DroYak_CAF1 13164 93 - 1
GGGUGCAAUUGCUCACAGGCACUUUUAAUAUUACCUAAUGUAUUCCGCUUGCUGUUUGCUUGGCUGCGUUGGCAGCCGAAAGAAUCGCACUUG
((((((....((..((((.((.....(((((........))))).....))))))..))((((((((....)))))))).......)))))). ( -28.80)
>consensus
GGGUGCAAUUGCUCAAAAGCAGUCUUAAUAUUACCUAAUGUAUUUCGUGUGCUUUUUGCGCGGCUGCGUUGGCAGCUGAAAGAAUCGCACUUG
((((((....((..(((((((..(..(((((........)))))..)..))))))).)).(((((((....)))))))........)))))). (-25.94 = -25.94 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:46 2006