Locus 6329

Sequence ID	X_DroMel_CAF1
Location	15,987,892 – 15,988,131
Length	239
Max. P	0.609932

overview

Window 6

Location	15,987,892 – 15,988,011
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.91
Mean single sequence MFE	-25.16
Consensus MFE	-23.58
Energy contribution	-24.22
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.13
Structure conservation index	0.94
SVM decision value	0.02
SVM RNA-class probability	0.542910
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15987892 119 - 22224390
CGCCCAUCGCCUUGACUAUAUCGGUUCCACAUUAAGCACAAUUAGUGUGGCCGUGCCGUCAAUUAAUUUAUCUUCUGUUAAUUACACUCGUUAUUUGUAA-AACAUAAGGGUAUAUUGCA
.((.....((((((((.....(((..(((((((((......))))))))))))....))))).........(((.((((..(((((.........)))))-)))).)))))).....)). ( -27.10)
>DroSec_CAF1 55821 120 - 1
CGCCCAUCGCCUUGACUAUAUCGGUUCCACAUUAAGCACAAUUAGUGUGGCCGUGCCGUCAAUUAAUUUAUCUUCUGUUAAUUAUACUCGUUAUUUGUAAAAACAUAAGGGUAUAUUGCA
........((.(((((.....(((..(((((((((......))))))))))))....)))))....................(((((((......(((....)))...)))))))..)). ( -25.90)
>DroSim_CAF1 46913 120 - 1
CGCCCAUCGCCUUGACUAUAUCGGUUCCACAUUAAGCACAAUUAGUGUGGCCGUGCCGUCAAUUAAUUUAUCUUCUGUUAAUUACACUCGUUAUUUGUAAAAACAUAAGGGUAUAUUGCA
.((.....((((((((.....(((..(((((((((......))))))))))))....))))).........(((.((((..(((((.........))))).)))).)))))).....)). ( -27.00)
>DroEre_CAF1 54651 119 - 1
CGCCCAUCGCCUGGACUAUAUCGGUUCCACAUUAAGCACAAUUAGUUUGGCCGUGCCGUCAAUUAAUUUAUCUUCUGUUAAUUACACUCGUUAUUUGUAA-AACAUAAGGGUAUAUGGCA
.(((....(((..(((.....(((..(((.(((((......))))).))))))....)))...........(((.((((..(((((.........)))))-)))).))))))....))). ( -23.10)
>DroYak_CAF1 38628 119 - 1
CGCCCAUCGCCUUGACUAUAUCGGUUCCACAUUAAGCACAAUUUGUGUGGCCGUGCCGUCAAUUAAUUUAUCUACUGUUAAUUACACUCGUUAUUUGUUA-AACAUAAGGGUAUAUCGCA
.((((......(((((.....((((..((((............))))..))))....)))))(((((..((..(((((.....)))...)).))..))))-)......))))........ ( -22.70)
>consensus
CGCCCAUCGCCUUGACUAUAUCGGUUCCACAUUAAGCACAAUUAGUGUGGCCGUGCCGUCAAUUAAUUUAUCUUCUGUUAAUUACACUCGUUAUUUGUAA_AACAUAAGGGUAUAUUGCA
.((((......(((((.....(((..(((((((((......))))))))))))....))))).............((((...((((.........))))..))))...))))........ (-23.58 = -24.22 +   0.64)

alignment

secondary structure

dotplot

Window 7

Location	15,988,011 – 15,988,131
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.83
Mean single sequence MFE	-28.80
Consensus MFE	-24.96
Energy contribution	-25.00
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.25
Structure conservation index	0.87
SVM decision value	0.15
SVM RNA-class probability	0.609932
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15988011 120 + 22224390
CAAUUUUGAUAAGCGAUUAAACGAUUACCCAUUAGUCGCGACUUAACGGUCGCAGGCCCCUUUUCGUAUCUCUUAGUCCUUGGAUCUUGGAUCUACCAAGGGAUCUGUACACGAAACCCA
...(((((....((((((((...........))))))))((((....))))((((..(((((...(((..(((.((((....)).)).)))..))).)))))..))))...))))).... ( -31.90)
>DroSec_CAF1 55941 120 + 1
CAAUUUUGAUAAGCGAUUAAACGAUUACCCAUUAGUCGCGACUUAACGGUCGCAGGCCCCUUUUCGUAUCUCUUUGUCCUUGGAUCUUGGAUCUACCAAGGGAUCACUACACGAAACGCA
............(((.......(((((.....)))))((((((....)))))).(..(((((...(((..(((..(((....)))...)))..))).)))))..)...........))). ( -29.20)
>DroSim_CAF1 47033 120 + 1
CAAUUUUGAUAAGCGAUUAAACGAUUACCCAUUAGUCGCGACUUAACGGUCGCAGGCCCCUUUUCGUAUCUCUUUGUCCUUGGAUCUUGGAUCUACCAAGGGAUCACUACACGAAACGCA
............(((.......(((((.....)))))((((((....)))))).(..(((((...(((..(((..(((....)))...)))..))).)))))..)...........))). ( -29.20)
>DroEre_CAF1 54770 118 + 1
CAAUUUUGAUAAGCGAUUAAACGAUUAC-CAUUAGUCGCGACUUAACGGUCCCAGGCCCCUU-UUGUAUCUCUUUGUCCUCGGAUCUUGAAUCUACCAAGGGAUCCCGAGCCGAAACCCA
............((((((((........-..)))))))).......(((..(..(..(((((-..(((..((...(((....)))...))...))).)))))..)..)..)))....... ( -25.50)
>DroYak_CAF1 38747 120 + 1
CAAUUUUGAUAAGCGAUUAAACGAUUACCCAUUAGUCGCGACUUAACGGUCCCAGGCCCCUUUUUGUAUCUCCUUGUCCACGGAUCUUGGAUCUACCAAGGGAUCUCUACCCGAAACCCA
...(((((....((((((((...........))))))))........(((...((..(((((...(((..(((..(((....)))...)))..))).)))))..))..)))))))).... ( -28.20)
>consensus
CAAUUUUGAUAAGCGAUUAAACGAUUACCCAUUAGUCGCGACUUAACGGUCGCAGGCCCCUUUUCGUAUCUCUUUGUCCUUGGAUCUUGGAUCUACCAAGGGAUCACUACACGAAACCCA
...(((((....((((((((...........))))))))((((....))))...(..(((((...(((..(((..(((....)))...)))..))).)))))..)......))))).... (-24.96 = -25.00 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:46 2006