Locus 1182

Sequence ID	2R_DroMel_CAF1
Location	4,704,666 – 4,704,826
Length	160
Max. P	0.984035

overview

Window 7

Location	4,704,666 – 4,704,786
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.22
Mean single sequence MFE	-23.66
Consensus MFE	-21.89
Energy contribution	-21.93
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.69
Structure conservation index	0.93
SVM decision value	1.96
SVM RNA-class probability	0.984035
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4704666 120 + 20766785
AAUAUGGAAUAUUCAAUGAGUGGUCAUGCAAUCGAAUGACCCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAU
....(((((((((.....(((((((((........)))).)))))((((((..........(((((((........)))))))........)))))).......)))))))))....... ( -28.07)
>DroSec_CAF1 14388 114 + 1
------GAAUAUUCAAUGAGUGGUCAUGCAAUCGAGUGACCCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAU
------(((((((.....(((((((((........)))).)))))((((((..........(((((((........)))))))........)))))).......)))))))......... ( -22.57)
>DroSim_CAF1 14715 114 + 1
------GAAUAUUCAAUGAGUGGUCAUGCAAUCGAGUGACCCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAU
------(((((((.....(((((((((........)))).)))))((((((..........(((((((........)))))))........)))))).......)))))))......... ( -22.57)
>DroEre_CAF1 14113 114 + 1
------GCAUAUUCAAUGAGUGGUCAUGCAAUCGGGUGACCCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAU
------(((((((((...(((((((((.(....).)))).)))))......))))))..(.(((((((........))))))).).....)))........................... ( -22.50)
>DroYak_CAF1 14230 114 + 1
------GAAUAUUCACUGAGUGGUCAUGCAAUUGAGUGACCCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAU
------(((((((.....(((((((((........)))).)))))((((((..........(((((((........)))))))........)))))).......)))))))......... ( -22.57)
>consensus
______GAAUAUUCAAUGAGUGGUCAUGCAAUCGAGUGACCCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAU
......(((((((.....(((((((((.(....).)))).)))))((((((..........(((((((........)))))))........)))))).......)))))))......... (-21.89 = -21.93 +   0.04)

alignment

secondary structure

dotplot

Window 8

Location	4,704,706 – 4,704,826
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.67
Mean single sequence MFE	-22.60
Consensus MFE	-22.60
Energy contribution	-22.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	1.00
SVM decision value	1.42
SVM RNA-class probability	0.951828
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4704706 120 + 20766785
CCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAUUGUGUAAACAAUUUGGCAUAAGCCAGAGGUCCUUAAUUAC
...................(.(((((((........))))))).)......((((((.(((((.............(((((((....)))))))(((....))).)))))....)))))) ( -22.60)
>DroSec_CAF1 14422 120 + 1
CCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAUUGUGUAAACAAUUUGGCAUAAGCCAGAGGUCCUUAAUUAC
...................(.(((((((........))))))).)......((((((.(((((.............(((((((....)))))))(((....))).)))))....)))))) ( -22.60)
>DroSim_CAF1 14749 120 + 1
CCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAUUGUGUAAACAAUUUGGCAUAAGCCAGAGGUCCUUAAUUAC
...................(.(((((((........))))))).)......((((((.(((((.............(((((((....)))))))(((....))).)))))....)))))) ( -22.60)
>DroEre_CAF1 14147 120 + 1
CCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAUUGUGUAAACAAUUUGGCAUAAGCCAGAGGUCCUUAAUUAC
...................(.(((((((........))))))).)......((((((.(((((.............(((((((....)))))))(((....))).)))))....)))))) ( -22.60)
>DroYak_CAF1 14264 120 + 1
CCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAUUGUGUAAACAAUUUGGCAGAAGCCAGAGGUCCUUAAUUAC
...................(.(((((((........))))))).)......((((((.(((((.............(((((((....)))))))(((....))).)))))....)))))) ( -22.60)
>consensus
CCGCUAAUUACUGAAUAAACCAUGCUUGCCCACAAACGAGCAUCGACAACUGUAAUUUACCUUCGAUAUUCCAAUUAAAUUGUGUAAACAAUUUGGCAUAAGCCAGAGGUCCUUAAUUAC
...................(.(((((((........))))))).)......((((((.(((((.............(((((((....)))))))(((....))).)))))....)))))) (-22.60 = -22.60 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:28 2006