Locus 6743

Sequence ID	X_DroMel_CAF1
Location	16,759,881 – 16,760,026
Length	145
Max. P	0.931770

overview

Window 9

Location	16,759,881 – 16,759,986
Length	105
Sequences	4
Columns	111
Reading direction	forward
Mean pairwise identity	75.63
Mean single sequence MFE	-17.53
Consensus MFE	-9.32
Energy contribution	-9.70
Covariance contribution	0.38
Combinations/Pair	1.15
Mean z-score	-1.88
Structure conservation index	0.53
SVM decision value	-0.01
SVM RNA-class probability	0.529237
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16759881 105 + 22224390
-----AAAUAGUUGCAAUAAUUUAGCAAAUGCCGAAUUUUCCAUCAACAUACUUUCGAU-UUUUUCAAGAGUAUCGCCAAAAAGUGCAAAAAAUAUGAGCAAACCAGGCAG
-----.....((((....((((..((....))..))))......))))(((((((.((.-....)).))))))).(((......(((...........))).....))).. ( -18.70)
>DroSec_CAF1 46746 97 + 1
-----AAAUAGAUGCUAUAAAUUAGCAAGUGCCACAUUUUCCAUCCACAAACUUUUGAU-UUUUUCAAGAGUAUCCCCAAAAAGUGCAAAG--UAUGAGCAAA------AU
-----.......(((((.....)))))..(((((.(((((.(((......((((((((.-....))))))))...........))).))))--).)).)))..------.. ( -17.23)
>DroSim_CAF1 44671 97 + 1
-----AAAUAGAUGCUAUAAACUAGCAAGUGCCACAUUUUCCAACCACAAGCUUUUGAU-UUUUUCAAGAGUAUCCCCAAAAAGUACAAAA--AAUGAGCAAA------AG
-----.......(((((.....)))))..(((..((((((..........((((((((.-....)))))))).....(.....).....))--)))).)))..------.. ( -14.00)
>DroYak_CAF1 38846 104 + 1
AAGAAAAAUAGGUGCUGUAAAUAAGUAAAUGCAAUAUUUUUCAUUCACAAACUUUUGAAGUAAUUCAAGAGUAUCCCUAAAAAGUGCAAAA--AU---CCAAAAC--UUUG
..((((((((..(((...............))).))))))))........(((((((((....)))))))))........(((((......--..---.....))--))). ( -20.18)
>consensus
_____AAAUAGAUGCUAUAAAUUAGCAAAUGCCACAUUUUCCAUCCACAAACUUUUGAU_UUUUUCAAGAGUAUCCCCAAAAAGUGCAAAA__AAUGAGCAAA______AG
............(((((.....))))).......................((((((((......))))))))....................................... ( -9.32 =  -9.70 +   0.38)

alignment

secondary structure

dotplot

Window 0

Location	16,759,907 – 16,760,026
Length	119
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	80.03
Mean single sequence MFE	-26.67
Consensus MFE	-18.31
Energy contribution	-17.93
Covariance contribution	-0.37
Combinations/Pair	1.18
Mean z-score	-2.12
Structure conservation index	0.69
SVM decision value	1.22
SVM RNA-class probability	0.931770
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16759907 119 + 22224390
CCGAAUUUUCCAUCAACAUACUUUCGAU-UUUUUCAAGAGUAUCGCCAAAAAGUGCAAAAAAUAUGAGCAAACCAGGCAGUUUGGGUGAAGGGCUGGCUUCGUAGCUAAAUGGAAAUAAU
......(((((((.....((((((.((.-....)).))))))(((((..(((.(((....................))).))).))))).....(((((....))))).))))))).... ( -24.35)
>DroSec_CAF1 46772 111 + 1
CCACAUUUUCCAUCCACAAACUUUUGAU-UUUUUCAAGAGUAUCCCCAAAAAGUGCAAAG--UAUGAGCAAA------AUUUUGGGUGAAGGGCUGGCUUCGUAGCAAAAUGGAAAUAAU
......(((((((((....((((((((.-....)))))))).(((((((((..(((....--.....)))..------.))))))).)).))((((......))))...))))))).... ( -30.90)
>DroSim_CAF1 44697 111 + 1
CCACAUUUUCCAACCACAAGCUUUUGAU-UUUUUCAAGAGUAUCCCCAAAAAGUACAAAA--AAUGAGCAAA------AGUUUGGGUGAAGGGCUGGCUUUGUAGCAAAAUGGAAACAAU
......((((((.((....((((((((.-....)))))))).((((((((..((.((...--..)).))...------..)))))).)).))((((......))))....)))))).... ( -27.10)
>DroYak_CAF1 38877 109 + 1
CAAUAUUUUUCAUUCACAAACUUUUGAAGUAAUUCAAGAGUAUCCCUAAAAAGUGCAAAA--AU---CCAAAAC--UUUGUUUAGGUGAAGGGCUG----UGUGGCAAAAUGGAAAUAAU
......((((((((((((.(((((((((....))))))))).((((((((((((......--..---.....))--))..)))))).)).......----)))))....))))))).... ( -24.32)
>consensus
CCACAUUUUCCAUCCACAAACUUUUGAU_UUUUUCAAGAGUAUCCCCAAAAAGUGCAAAA__AAUGAGCAAA______AGUUUGGGUGAAGGGCUGGCUUCGUAGCAAAAUGGAAAUAAU
......((((((.((....((((((((......)))))))).((((((((..............................)))))).)).))((((......))))....)))))).... (-18.31 = -17.93 +  -0.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:42 2006