Locus 1021

Sequence ID	X_DroMel_CAF1
Location	2,981,660 – 2,981,824
Length	164
Max. P	0.998926

overview

Window 5

Location	2,981,660 – 2,981,762
Length	102
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	91.73
Mean single sequence MFE	-25.65
Consensus MFE	-24.38
Energy contribution	-24.43
Covariance contribution	0.06
Combinations/Pair	1.08
Mean z-score	-2.20
Structure conservation index	0.95
SVM decision value	3.29
SVM RNA-class probability	0.998926
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2981660 102 + 22224390
GAAAAACUUUUGUUUACCCAAUGCUAAUGCUGGGAAUGAAAGAUAUUUCCAGCGAAAAUUCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAA---CAC---CCC---
...((((....)))).((((((..((.(((((((((((.....))))))))))).....(((((....)))))...........))..))))))..---...---...--- ( -26.90)
>DroSec_CAF1 359272 102 + 1
GAAAAACUUUUGUUUACCCAAUGCUAAUGCUGGGAAUGAAAGAUAUUUCCAGCGAAAAUUCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAA---CAC---CCC---
...((((....)))).((((((..((.(((((((((((.....))))))))))).....(((((....)))))...........))..))))))..---...---...--- ( -26.90)
>DroSim_CAF1 325005 102 + 1
GAAAAACUUUUGUUUACCCAAUGCUAAUGCUGGAAAUGAAAGAUAUUUCCAGCGAAAAUUCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAA---CAC---CCC---
...((((....)))).((((((..((.(((((((((((.....))))))))))).....(((((....)))))...........))..))))))..---...---...--- ( -27.40)
>DroEre_CAF1 390167 108 + 1
GAAAAACUUUUGUUUACCCCAUGCUAAUGCUGGGAAUGAAAGAUAUUUCCAGCGAAAAUUCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAA---CACACCCUUCCC
...((((....)))).((((((......((((((((((.....))))))))))(((......)))))).)))...................(((((---.......))))) ( -25.20)
>DroYak_CAF1 371012 105 + 1
GAAAAACUUUUGUUUACCCAAUGCUAAUGCUGGGAAUGAAAGAUAUUUCCAGCGAAAAUUCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAA---CAC---CACCCC
...((((....)))).((((((..((.(((((((((((.....))))))))))).....(((((....)))))...........))..))))))..---...---...... ( -26.90)
>DroAna_CAF1 557885 101 + 1
GAAAAACUUUUGUUUACCCAAU------GUUGAGAAUGAAAGAUAUUUCCAGCGAAAA-UCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAAAGACAC---CCACAC
..........(((((.((((((------((((..(((...(((...((((.(((((..-...)))))..))))))).)))....))))))))))..))))).---...... ( -20.60)
>consensus
GAAAAACUUUUGUUUACCCAAUGCUAAUGCUGGGAAUGAAAGAUAUUUCCAGCGAAAAUUCCUUCGUGAGGGAUCUAAUUAACAUAAUGUUGGGAA___CAC___CCC___
...((((....)))).((((((......((((((((((.....))))))))))......(((((....)))))...............))))))................. (-24.38 = -24.43 +   0.06)

alignment

secondary structure

dotplot

Window 6

Location	2,981,732 – 2,981,824
Length	92
Sequences	3
Columns	92
Reading direction	forward
Mean pairwise identity	83.66
Mean single sequence MFE	-9.77
Consensus MFE	-8.15
Energy contribution	-8.15
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.92
Structure conservation index	0.83
SVM decision value	0.72
SVM RNA-class probability	0.831895
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2981732 92 + 22224390
AUCUAAUUAACAUAAUGUUGGGAACACCCCCACUCCUGGUUUUCCUUUUCCUUUUCCUUCUUUUUUUUUCCAACCGUCUCUAUGACACUGCA
.......((((.....))))((((.(((.........))).))))..............................(((.....)))...... (  -9.80)
>DroSec_CAF1 359344 73 + 1
AUCUAAUUAACAUAAUGUUGGGAACACCCCCACUUCUGU-UUUCC------------------UUUUUUCCAACCGUCUCUAUGACACUGCA
................((((((((.......((....))-.....------------------...)))))))).(((.....)))...... (  -9.76)
>DroSim_CAF1 325077 73 + 1
AUCUAAUUAACAUAAUGUUGGGAACACCCCCACUCCUGU-UUUCC------------------UUUUUUCCAACCGUCUCUAUGACACUGCA
................((((((((.......((....))-.....------------------...)))))))).(((.....)))...... (  -9.76)
>consensus
AUCUAAUUAACAUAAUGUUGGGAACACCCCCACUCCUGU_UUUCC__________________UUUUUUCCAACCGUCUCUAUGACACUGCA
................((((((((..........................................)))))))).(((.....)))...... ( -8.15 =  -8.15 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:28 2006