Locus 3060

Sequence ID	2R_DroMel_CAF1
Location	10,525,246 – 10,525,399
Length	153
Max. P	0.831663

overview

Window 0

Location	10,525,246 – 10,525,366
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-19.13
Consensus MFE	-17.70
Energy contribution	-17.74
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.42
Structure conservation index	0.93
SVM decision value	0.72
SVM RNA-class probability	0.831663
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10525246 120 + 20766785
GAUACACAAUCUAAGUAAUCCGGAAUCUCGGUCAAUUCAUUUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAA
.............((((((..((((...............)))).))))))......((((.(((((((........................)))))))((((......)))).)))). ( -19.22)
>DroSec_CAF1 26116 120 + 1
GAUACACAAUCUAAGUAAUCCGGAAUCUCGGUCAAUUCAUUUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAA
.............((((((..((((...............)))).))))))......((((.(((((((........................)))))))((((......)))).)))). ( -19.22)
>DroSim_CAF1 22298 120 + 1
GAUACACAAUCUAAGUAAUCCGGAAUCUCGGUCAAUUCAUUUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAA
.............((((((..((((...............)))).))))))......((((.(((((((........................)))))))((((......)))).)))). ( -19.22)
>DroEre_CAF1 28376 120 + 1
GAUACCGACUCUAAGUAAUCCGGAAUCUCGGUCAAUUCAUUUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAA
.....(((((.(((((...((((....))))...............................(((((((........................)))))))......)))))))))).... ( -24.06)
>DroYak_CAF1 26423 120 + 1
GAUACCCACUCUAAGUAAUCCGGAAUCUCGGUCAAUUCAUUUCCUAUUACUCAAAUAUUUCAGGCGGCGUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAA
.............((((((..((((...............)))).))))))......((((.(.(((((........................))))).)((((......)))).)))). ( -13.92)
>consensus
GAUACACAAUCUAAGUAAUCCGGAAUCUCGGUCAAUUCAUUUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAA
.............((((((..((((...............)))).))))))......((((.(((((((........................)))))))((((......)))).)))). (-17.70 = -17.74 +   0.04)

alignment

secondary structure

dotplot

Window 1

Location	10,525,286 – 10,525,399
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.20
Mean single sequence MFE	-18.60
Consensus MFE	-16.08
Energy contribution	-16.12
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.41
Structure conservation index	0.86
SVM decision value	0.38
SVM RNA-class probability	0.714801
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10525286 113 + 20766785
UUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAACUUCUAGGAUAUAUAUUUUUGUUUUUGCUGGC-------U
.....................((((((((.((((...........((......))((((...((((((....)).))))....)))).............)))).)))))))-------) ( -19.10)
>DroSec_CAF1 26156 113 + 1
UUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAACUUCUAGGAUAUAUAUUUUUGUUUUUGCUGGC-------U
.....................((((((((.((((...........((......))((((...((((((....)).))))....)))).............)))).)))))))-------) ( -19.10)
>DroSim_CAF1 22338 113 + 1
UUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAACUUCUAGGAUAUAUAUUUUUGUUUUUGCUGGC-------U
.....................((((((((.((((...........((......))((((...((((((....)).))))....)))).............)))).)))))))-------) ( -19.10)
>DroEre_CAF1 28416 113 + 1
UUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAACUUCUAGGAUAUACAUUUUUGUUUUUGCUGGC-------U
.....................((((((((.((((...........((......))((((...((((((....)).))))....)))).............)))).)))))))-------) ( -19.10)
>DroYak_CAF1 26463 120 + 1
UUCCUAUUACUCAAAUAUUUCAGGCGGCGUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAACUUCUAGGAUAUAUAAUUUUGUUUUUGCUGGCUGUUGGCU
....................(((.(((((.((((...........((......))((((...((((((....)).))))....)))).............)))).))))).)))...... ( -16.60)
>consensus
UUCCUAUUACUCAAAUAUUUCAGCCGGCAUAAACUUUUUCUAAUUCAUCUCAUUGCUGGCACUUUCACUUAAGUCGAAAACUUCUAGGAUAUAUAUUUUUGUUUUUGCUGGC_______U
......................(((((((.((((...........((......))((((...((((((....)).))))....)))).............)))).)))))))........ (-16.08 = -16.12 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:20 2006