Locus 2289

Sequence ID	2R_DroMel_CAF1
Location	8,426,563 – 8,426,682
Length	119
Max. P	0.996385

overview

Window 1

Location	8,426,563 – 8,426,657
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	96.17
Mean single sequence MFE	-18.70
Consensus MFE	-16.84
Energy contribution	-17.36
Covariance contribution	0.52
Combinations/Pair	1.04
Mean z-score	-1.60
Structure conservation index	0.90
SVM decision value	1.39
SVM RNA-class probability	0.948857
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8426563 94 + 20766785
AUGAGAAUUCUUAUAAUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAACCUAA
(((((....)))))............((((.((((((((((((((((...........))))))))....))).))))).)))).......... ( -19.10)
>DroSec_CAF1 37791 94 + 1
AUGAGAAUUCUUAUAAUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAGCCUAA
(((((....)))))............((((.((((((((((((((((...........))))))))....))).))))).)))).......... ( -19.10)
>DroSim_CAF1 37246 94 + 1
AUAAGAAUUCUUAUAAUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAGCCUAA
(((((....)))))............((((.((((((((((((((((...........))))))))....))).))))).)))).......... ( -19.00)
>DroEre_CAF1 40756 94 + 1
AUCAGAAUUCUUAUAAUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAGAAAGCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAACCUAA
....(((((.......((....)).......((((((((((((((((.((......))))))))))....))).))))).)))))......... ( -19.30)
>DroYak_CAF1 39079 94 + 1
AUCAGAAUUCUUAUAACCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUUAAAAAGCACUAGCAUUCCAUUUCAAUGUGACAGAUUCCAAACCUAA
....(((((.(((((((((..........))))......((((((((...........)))))))).......)))))..)))))......... ( -17.00)
>consensus
AUCAGAAUUCUUAUAAUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAACCUAA
(((((....)))))............((((.((((((((((((((((...........))))))))....))).))))).)))).......... (-16.84 = -17.36 +   0.52)

alignment

secondary structure

dotplot

Window 2

Location	8,426,578 – 8,426,682
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	91.34
Mean single sequence MFE	-22.66
Consensus MFE	-20.94
Energy contribution	-21.34
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.92
Structure conservation index	0.92
SVM decision value	2.69
SVM RNA-class probability	0.996385
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8426578 104 + 20766785
AUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAACCUAAUGAGAAAAUUUAAUUGGUUGGUUCA
.(((((((...((((.((((((((((((((((...........))))))))....))).))))).))))......)))))))...................... ( -22.90)
>DroSec_CAF1 37806 100 + 1
AUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAGCCUAAUGAGAAAAUUUAAUUG----GUCCA
.(((((((...((((.((((((((((((((((...........))))))))....))).))))).))))......))))))).............----..... ( -22.90)
>DroSim_CAF1 37261 100 + 1
AUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAGCCUAAUGAGAAAAUUUAAUUG----GUCCA
.(((((((...((((.((((((((((((((((...........))))))))....))).))))).))))......))))))).............----..... ( -22.90)
>DroEre_CAF1 40771 100 + 1
AUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAGAAAGCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAACCUAAUGACAACAUUUAUUUU----CUACG
.(((((((...((((.((((((((((((((((.((......))))))))))....))).))))).))))......))))))).............----..... ( -24.50)
>DroYak_CAF1 39094 100 + 1
ACCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUUAAAAAGCACUAGCAUUCCAUUUCAAUGUGACAGAUUCCAAACCUAAUGAGAACAUUUAUUUC----UUUCG
..((((((...((((.(((((...((((((((...........))))))))........))))).))))......))))))..............----..... ( -20.10)
>consensus
AUCAUUAGAAAAAUUGGUCAUUCGGGAGUGCUCAAAAACCACUAGCAUUCCAUUUCGAUGUGACAGAUUCCAAACCUAAUGAGAAAAUUUAAUUG____GUCCA
.(((((((...((((.((((((((((((((((...........))))))))....))).))))).))))......)))))))...................... (-20.94 = -21.34 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:49 2006