Locus 7470

Sequence ID	X_DroMel_CAF1
Location	18,652,122 – 18,652,239
Length	117
Max. P	0.652438

overview

Window 3

Location	18,652,122 – 18,652,239
Length	117
Sequences	3
Columns	117
Reading direction	forward
Mean pairwise identity	89.05
Mean single sequence MFE	-33.03
Consensus MFE	-27.20
Energy contribution	-27.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.82
SVM decision value	0.00
SVM RNA-class probability	0.534131
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18652122 117 + 22224390
CUAGAAGCGUUCACUCUGCACAUACAUAAGGUGGGCACCUAAUGCUCUGGUGCCCAUGAGCAUGAGCCUAGAGCUCCAGAGCUCCAGAGCUCCGCUUGAUUGACAAAUGAACAAAUC
........(((((...((((..........(((((((((.........)))))))))((((..((((((.(((((....))))).)).)))).))))...)).))..)))))..... ( -41.60)
>DroSec_CAF1 11067 104 + 1
CUAGAAGCGACCACUCUGCACAUACAUAAGGUGGGCACCUAAUGCUCUG---CC--CGAGCAUGAGCCUAGAGCUCC--------AGAGCUCCGCUUGAUUGACAAAUGAACAAAUC
....(((((......................(((((.....((((((..---..--.))))))..)))))(((((..--------..)))))))))).................... ( -26.70)
>DroSim_CAF1 11174 104 + 1
CUAGAAGCGGCCACUCGGCACACACAUAAGGUGGGCACCUAAUGCUCUG---CC--CGAGCAUGAGCCUAGAGCUCC--------AGAGCUCCGCUUGAUUGACAAAUGAACAAAUC
....((((((((....)))............(((((.....((((((..---..--.))))))..)))))(((((..--------..)))))))))).................... ( -30.80)
>consensus
CUAGAAGCGACCACUCUGCACAUACAUAAGGUGGGCACCUAAUGCUCUG___CC__CGAGCAUGAGCCUAGAGCUCC________AGAGCUCCGCUUGAUUGACAAAUGAACAAAUC
....(((((......................(((((.....((((((..........))))))..)))))((((((..........))))))))))).................... (-27.20 = -27.20 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	18,652,122 – 18,652,239
Length	117
Sequences	3
Columns	117
Reading direction	reverse
Mean pairwise identity	89.05
Mean single sequence MFE	-40.33
Consensus MFE	-31.37
Energy contribution	-31.70
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.23
Structure conservation index	0.78
SVM decision value	0.25
SVM RNA-class probability	0.652438
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18652122 117 - 22224390
GAUUUGUUCAUUUGUCAAUCAAGCGGAGCUCUGGAGCUCUGGAGCUCUAGGCUCAUGCUCAUGGGCACCAGAGCAUUAGGUGCCCACCUUAUGUAUGUGCAGAGUGAACGCUUCUAG
((..(((((((((..((..((((((((((.((((((((....)))))))))))).))))..((((((((.........)))))))).....))....))..)))))))))..))... ( -49.30)
>DroSec_CAF1 11067 104 - 1
GAUUUGUUCAUUUGUCAAUCAAGCGGAGCUCU--------GGAGCUCUAGGCUCAUGCUCG--GG---CAGAGCAUUAGGUGCCCACCUUAUGUAUGUGCAGAGUGGUCGCUUCUAG
((((..(......)..))))(((((((((.((--------((....))))))))..((((.--.(---((.(((((.((((....)))).)))).).))).))))...))))).... ( -33.30)
>DroSim_CAF1 11174 104 - 1
GAUUUGUUCAUUUGUCAAUCAAGCGGAGCUCU--------GGAGCUCUAGGCUCAUGCUCG--GG---CAGAGCAUUAGGUGCCCACCUUAUGUGUGUGCCGAGUGGCCGCUUCUAG
((((..(......)..))))((((((((((..--------..)))))).((((...(((((--((---((..((((.((((....)))).)))).))).)))))))))))))).... ( -38.40)
>consensus
GAUUUGUUCAUUUGUCAAUCAAGCGGAGCUCU________GGAGCUCUAGGCUCAUGCUCG__GG___CAGAGCAUUAGGUGCCCACCUUAUGUAUGUGCAGAGUGGACGCUUCUAG
((((..(......)..))))((((((((((((((....)))))))))...((((((((((..........)))))).((((....))))............))))...))))).... (-31.37 = -31.70 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:44 2006