Locus 490

Sequence ID	3R_DroMel_CAF1
Location	1,835,852 – 1,835,958
Length	106
Max. P	0.972890

overview

Window 1

Location	1,835,852 – 1,835,958
Length	106
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	75.35
Mean single sequence MFE	-27.33
Consensus MFE	-15.31
Energy contribution	-15.53
Covariance contribution	0.23
Combinations/Pair	1.15
Mean z-score	-1.79
Structure conservation index	0.56
SVM decision value	0.02
SVM RNA-class probability	0.545413
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1835852 106 + 27905053
-UAU---GUUAUAAUUUUAUCCUCCUUUGGGGUAUGGAA-AUAUAUAAGUGUGAUCACCAAGUGACCGCAUUAGCAAGCAGUAAAGGCACUGCUUUAUCUAGCAGU---------GUUAU
-..(---((((((.((((((((((....)))).))))))-.))))..((((((.((((...)))).)))))).))).........(((((((((......))))))---------))).. ( -29.60)
>DroSec_CAF1 2103 113 + 1
GUAUUUACUUAUUUUUUUAAGCUCCUUUACGGUGUGGAAAAUGCAUAAGUGUAAUCACCAAGUGACCGCAUUAG-------AGAAGACACUGCUUUAUUAAGCAGUGAAUUGACUGCUGU
...................(((..(((((..((((((....((((....)))).((((...)))))))))))))-------))....((((((((....))))))))........))).. ( -27.40)
>DroSim_CAF1 2015 113 + 1
GUAUUUACUUAUUUUUUUAAGCUCCUUCACGGUGUGAAAGAUGCAUAAGUGUAAUCACCAAGUGACCGCAUUAG-------UGAAAACACUACUUUAUUAAGCAGUGAAUUGACUGCUGU
((.((((((...........((((.(((((...))))).)).))...(((((..((((...))))..)))))))-------)))).))............((((((......)))))).. ( -25.00)
>consensus
GUAUUUACUUAUUUUUUUAAGCUCCUUUACGGUGUGGAA_AUGCAUAAGUGUAAUCACCAAGUGACCGCAUUAG_______UGAAGACACUGCUUUAUUAAGCAGUGAAUUGACUGCUGU
........................((((...(((((.....))))).(((((..((((...))))..)))))..........)))).((((((((....))))))))............. (-15.31 = -15.53 +   0.23)

alignment

secondary structure

dotplot

Window 2

Location	1,835,852 – 1,835,958
Length	106
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	75.35
Mean single sequence MFE	-24.93
Consensus MFE	-14.68
Energy contribution	-15.13
Covariance contribution	0.45
Combinations/Pair	1.14
Mean z-score	-2.25
Structure conservation index	0.59
SVM decision value	1.70
SVM RNA-class probability	0.972890
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1835852 106 - 27905053
AUAAC---------ACUGCUAGAUAAAGCAGUGCCUUUACUGCUUGCUAAUGCGGUCACUUGGUGAUCACACUUAUAUAU-UUCCAUACCCCAAAGGAGGAUAAAAUUAUAAC---AUA-
....(---------((((((......)))))))(((((.......((....))((((((...))))))............-...........)))))................---...- ( -21.80)
>DroSec_CAF1 2103 113 - 1
ACAGCAGUCAAUUCACUGCUUAAUAAAGCAGUGUCUUCU-------CUAAUGCGGUCACUUGGUGAUUACACUUAUGCAUUUUCCACACCGUAAAGGAGCUUAAAAAAAUAAGUAAAUAC
...(((.......((((((((....))))))))......-------....((..(((((...)))))..))....)))..........((.....)).(((((......)))))...... ( -23.30)
>DroSim_CAF1 2015 113 - 1
ACAGCAGUCAAUUCACUGCUUAAUAAAGUAGUGUUUUCA-------CUAAUGCGGUCACUUGGUGAUUACACUUAUGCAUCUUUCACACCGUGAAGGAGCUUAAAAAAAUAAGUAAAUAC
...(((((.((..((((((((....))))))))..)).)-------))..((..(((((...)))))..)).....)).((((((((...))))))))(((((......)))))...... ( -29.70)
>consensus
ACAGCAGUCAAUUCACUGCUUAAUAAAGCAGUGUCUUCA_______CUAAUGCGGUCACUUGGUGAUUACACUUAUGCAU_UUCCACACCGUAAAGGAGCUUAAAAAAAUAAGUAAAUAC
...(((.......((((((((....)))))))).................((.((((((...)))))).))....)))..........((.....))....................... (-14.68 = -15.13 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:29 2006