Locus 6146

Sequence ID	3R_DroMel_CAF1
Location	16,103,445 – 16,103,582
Length	137
Max. P	0.810991

overview

Window 9

Location	16,103,445 – 16,103,549
Length	104
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	77.29
Mean single sequence MFE	-24.38
Consensus MFE	-12.44
Energy contribution	-12.68
Covariance contribution	0.24
Combinations/Pair	1.07
Mean z-score	-2.00
Structure conservation index	0.51
SVM decision value	0.65
SVM RNA-class probability	0.810991
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16103445 104 + 27905053
UUAGCUGAUGACGCUGACCAGCAUA---GC--ACUCAGUGCUCACUUUCUCAUCCUGUG-----AUGCCUCUCAUCCGAUGCUUCGCUAUCGCCAUCGGCAUCGCCAUCCUUGA
......(((((.(((....)))..(---((--((...))))).......)))))..(((-----(((((.......((((((...)).)))).....))))))))......... ( -26.50)
>DroSec_CAF1 54072 84 + 1
-UAGCUGAUGACGCUGACCAGCACA---GCACACUCAAUGCUCACUUUCUCAUCCUGCG-----AUGCCUCUC---------------------AUCGGCAUCGCCAUCCUUGA
-.....(((((.(((....)))..(---(((.......)))).......)))))..(((-----(((((....---------------------...))))))))......... ( -23.50)
>DroSim_CAF1 60170 108 + 1
-UAGCUGAUGACGCUGACCAGCACAGCAGCACACUCAGUGCUCACUUUCUCAUCCUGCG-----AUGCCUCUCGUCCGAUGCUUCGCUAUCGCCAUCGGCAUCGCCAUCCUUGA
-.....(((((.((((.......))))(((((.....))))).......)))))..(((-----(((((.......((((((...)).)))).....))))))))......... ( -31.80)
>DroEre_CAF1 30161 98 + 1
---GCUGAUGACGCUGACCAGC----------ACUCAG---UCACUUCCUCAUCCUUCAUCCUCAUGCCUCUCAUCGGAUGCUUCGCUAUCACCAUCGGCAUCGCCAUCCUUGA
---(((((((..(((((.....----------..))))---)...............(((((..(((.....))).)))))............))))))).............. ( -19.10)
>DroYak_CAF1 72855 93 + 1
---GCUGAUGACGCUGACCAGC----------ACUCAG---UCAUUUCCUCAUCCUUCG-----GUGCCUCUCAUCCGAUGCGUCGCUAUCACCAUCAGCAUCGCCAUCCUUGA
---(((((((..(((((.....----------..))))---)...............((-----..((.((......)).))..)).......))))))).............. ( -21.00)
>consensus
_UAGCUGAUGACGCUGACCAGCA_A___GC__ACUCAGUGCUCACUUUCUCAUCCUGCG_____AUGCCUCUCAUCCGAUGCUUCGCUAUCACCAUCGGCAUCGCCAUCCUUGA
...(((((((..(((....))).......................................................((((......))))..))))))).............. (-12.44 = -12.68 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	16,103,474 – 16,103,582
Length	108
Sequences	4
Columns	108
Reading direction	forward
Mean pairwise identity	80.71
Mean single sequence MFE	-19.25
Consensus MFE	-12.24
Energy contribution	-13.17
Covariance contribution	0.94
Combinations/Pair	1.09
Mean z-score	-1.72
Structure conservation index	0.64
SVM decision value	0.08
SVM RNA-class probability	0.573682
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16103474 108 + 27905053
UCAGUGCUCACUUUCUCAUCCUGUGAUGCCUCUCAUCCGAUGCUUCGCUAUCGCCAUCGGCAUCGCCAUCCUUGAACACACGCUUCAGAUACAAGUAUAUUUGCCCCC
..((((......(((.......((((((((.......((((((...)).)))).....)))))))).......)))....)))).((((((......))))))..... ( -18.84)
>DroSec_CAF1 54102 87 + 1
UCAAUGCUCACUUUCUCAUCCUGCGAUGCCUCUC---------------------AUCGGCAUCGCCAUCCUUGAACACACGCUUCAGAUACAAGUAUAUUUGCCCCC
.....((.....(((.......((((((((....---------------------...)))))))).......))).....))..((((((......))))))..... ( -17.74)
>DroSim_CAF1 60203 108 + 1
UCAGUGCUCACUUUCUCAUCCUGCGAUGCCUCUCGUCCGAUGCUUCGCUAUCGCCAUCGGCAUCGCCAUCCUUGAACACACGCUUCAGAUACAAGUGUAUUUGCCCCC
..((((......(((.......((((((((.......((((((...)).)))).....)))))))).......)))....)))).(((((((....)))))))..... ( -24.44)
>DroYak_CAF1 72876 99 + 1
UCAG---UCAUUUCCUCAUCCUUCGGUGCCUCUCAUCCGAUGCGUCGCUAUCACCAUCAGCAUCGCCAUCCUUGAACAGACGCUUCUGAUA------UAUUUGCCCCC
....---.................((.((.....(((.((.((((((((.........))).....((....))....))))).)).))).------.....)))).. ( -16.00)
>consensus
UCAGUGCUCACUUUCUCAUCCUGCGAUGCCUCUCAUCCGAUGCUUCGCUAUCGCCAUCGGCAUCGCCAUCCUUGAACACACGCUUCAGAUACAAGUAUAUUUGCCCCC
...............(((....((((((((.......(((((......))))).....))))))))......)))..........((((((......))))))..... (-12.24 = -13.17 +   0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:52 2006