Locus 7248

Sequence ID	X_DroMel_CAF1
Location	18,088,529 – 18,088,677
Length	148
Max. P	0.676573

overview

Window 4

Location	18,088,529 – 18,088,637
Length	108
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.78
Mean single sequence MFE	-30.28
Consensus MFE	-20.46
Energy contribution	-20.38
Covariance contribution	-0.08
Combinations/Pair	1.13
Mean z-score	-1.82
Structure conservation index	0.68
SVM decision value	0.22
SVM RNA-class probability	0.638880
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18088529 108 + 22224390
UCUUAUCUUAUCGCCU-------UACUUUUCUCGCUGUGCAGCGGACACAAAUGCGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCGCUGC-----UCGUCUUAUCGC
................-------..........(.((.(((((((((((....(((..(((((((((....))))).)))))))...))))).....))))))-----.)).)....... ( -29.00)
>DroSec_CAF1 10899 105 + 1
UCUUAUCUUAUCGCCU-------UUAUUUUCUCGCUGUGCAGCGAACACAAAUACGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG---C-----CCGUCUUAUCGC
............((..-------.(((((..(((((....)))))....))))).)).(((((((((....))))).))))((..(((((....)))))---.-----.))......... ( -24.00)
>DroSim_CAF1 10857 105 + 1
UCUUAUCUUAUCGCCU-------UUAUUUUCUCGCUGUGCAGCGAACACAAAUACGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG---C-----CCGUCUUAUCGC
............((..-------.(((((..(((((....)))))....))))).)).(((((((((....))))).))))((..(((((....)))))---.-----.))......... ( -24.00)
>DroEre_CAF1 8247 112 + 1
UCCUAUCUCAUCGCGAUAGCCGCUCCUUUUCUCGCGGUGCAGCGCGCUUCAAUGCGCCACCUGUUGCCAAUGCAACAAGGUCGUUCGGUGUUAUCACUG---C-----CCCUCUUAUCGC
............(((((((((((..........)))))((((.((((......))))((((((((((....)))))).((....))))))......)))---)-----......)))))) ( -36.00)
>DroYak_CAF1 9856 108 + 1
UCUUAUCUUAUCGCGA---------CUUUUCUCGCUGUGCAGCGGCCUUAAAUGUGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG---GUCGAUCGGUCUUAUCGC
............((((---------........(((....)))((((......).)))(((((((((....)))))).(((((.((((((....)))))---).))))))))....)))) ( -38.40)
>consensus
UCUUAUCUUAUCGCCU_______UUCUUUUCUCGCUGUGCAGCGAACACAAAUGCGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG___C_____CCGUCUUAUCGC
............((.................(((((....)))))..........((.(((((((((....))))).)))).)).(((((....)))))...................)) (-20.46 = -20.38 +  -0.08)

alignment

secondary structure

dotplot

Window 5

Location	18,088,562 – 18,088,677
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.61
Mean single sequence MFE	-34.92
Consensus MFE	-28.82
Energy contribution	-28.54
Covariance contribution	-0.28
Combinations/Pair	1.12
Mean z-score	-1.49
Structure conservation index	0.83
SVM decision value	0.30
SVM RNA-class probability	0.676573
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18088562 115 + 22224390
AGCGGACACAAAUGCGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCGCUGC-----UCGUCUUAUCGCAGCAACACGCCCCCGUAACGGAGGCUCGUCCUAUUCCCAU
...((((......((((((((((((((....))))).)))).....))))).......(((((-----..........))))).....(((.(((...))).)))..))))......... ( -38.10)
>DroSec_CAF1 10932 110 + 1
AGCGAACACAAAUACGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG---C-----CCGUCUUAUCGCAGCAACACGCCCCCGUAACGGAGGCUCGUCCUAUUCCC--
.((((.............(((((((((....))))).))))((..(((((....)))))---.-----.)).....))))........(((.(((...))).))).............-- ( -31.20)
>DroSim_CAF1 10890 110 + 1
AGCGAACACAAAUACGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG---C-----CCGUCUUAUCGCAGCAACACGCCCCCGUAACGGAGGCUCGUCCUAUUCCC--
.((((.............(((((((((....))))).))))((..(((((....)))))---.-----.)).....))))........(((.(((...))).))).............-- ( -31.20)
>DroEre_CAF1 8287 111 + 1
AGCGCGCUUCAAUGCGCCACCUGUUGCCAAUGCAACAAGGUCGUUCGGUGUUAUCACUG---C-----CCCUCUUAUCGCAGCA-CACGCCCCCGUAACGGAGGCUCGUCCUACUCCCAC
.((((((......)))).(((((((((....))))).)))).(..(((((....)))))---.-----.)........))((.(-(..(((.(((...))).)))..)).))........ ( -32.00)
>DroYak_CAF1 9887 117 + 1
AGCGGCCUUAAAUGUGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG---GUCGAUCGGUCUUAUCGCAGCAACACGCCCCCGUAACGGAGGCUCGUCCUAUUCCCAU
.((((((......).)))(((((((((....)))))).(((((.((((((....)))))---).))))))))......))........(((.(((...))).)))............... ( -42.10)
>consensus
AGCGAACACAAAUGCGCCACCUGUUGCUGAUGCAACAAGGUCGUCCGGUGUUAUCAUCG___C_____CCGUCUUAUCGCAGCAACACGCCCCCGUAACGGAGGCUCGUCCUAUUCCCA_
.((((..........((.(((((((((....))))).)))).)).(((((....))))).................))))........(((.(((...))).)))............... (-28.82 = -28.54 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:07 2006