Locus 5285

Sequence ID	2L_DroMel_CAF1
Location	14,900,278 – 14,900,396
Length	118
Max. P	0.654774

overview

Window 7

Location	14,900,278 – 14,900,396
Length	118
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	91.27
Mean single sequence MFE	-30.55
Consensus MFE	-23.88
Energy contribution	-25.00
Covariance contribution	1.12
Combinations/Pair	1.07
Mean z-score	-1.56
Structure conservation index	0.78
SVM decision value	0.04
SVM RNA-class probability	0.554474
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14900278 118 + 22407834
ACAUAUAUACGUUUAUUCGUUUAGGCCAAACACAAGCGCGCUUAGCCAUAAAUUGUUGCGUUGAGCGACGCACGGAAAAGCGGAGAACGGCAUAAAA-AAAAGUAGGAGCAGCUCCGGG
.........(((((.(((((((.(......)....(((((((((((((........)).)))))))).)))......))))))))))))........-.......((((...))))... ( -31.10)
>DroSec_CAF1 57884 119 + 1
AAAAAUAUACGUUUAUACUUUAAGGCAAAACACAAGCGCGCUUAGCCAUAAAUUGUUGCGUUGAGCGACGCACGGAAAAGCGAAGAACGGCAUAAAAAAAAAGUUGGAGCAGCUCCGGG
.........(((((.....................(((((((((((((........)).)))))))).))).((......))..)))))..............((((((...)))))). ( -26.70)
>DroSim_CAF1 60725 117 + 1
AUAAAUAUACGUUUAUACUUUUAGGCCAAACACAAGCGCGCUUAGCCAUAAAUUGUUGCGUUGAGCGACGCACGGAAAAGCGAAGAACGGCAUAAAA--AAAGUAGGAGCAGCUCCGGG
..........((((.(((((((..(((........(((((((((((((........)).)))))))).))).((......))......))).....)--)))))).))))......... ( -31.50)
>DroYak_CAF1 57525 113 + 1
AAAUAUAUACGCUCAUACUUUUAGGCCAAACACAAGC--GCUUAGCCAUAAAUUGUUGCGUUGAGCGACGCACGGAAAAGCGGAGAGCGGCAUAAA---AAAGUAGGAGCCGCUC-GGA
..........((((.(((((((..(((.........(--(((((((((........)).)))))))).(((........)))......)))....)---)))))).)))).....-... ( -32.90)
>consensus
AAAAAUAUACGUUUAUACUUUUAGGCCAAACACAAGCGCGCUUAGCCAUAAAUUGUUGCGUUGAGCGACGCACGGAAAAGCGAAGAACGGCAUAAAA__AAAGUAGGAGCAGCUCCGGG
..........((((.((((((...(((........(((((((((((((........)).)))))))).))).((......))......)))........)))))).))))......... (-23.88 = -25.00 +   1.12)

alignment

secondary structure

dotplot

Window 8

Location	14,900,278 – 14,900,396
Length	118
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	91.27
Mean single sequence MFE	-30.11
Consensus MFE	-23.98
Energy contribution	-25.35
Covariance contribution	1.37
Combinations/Pair	1.03
Mean z-score	-1.67
Structure conservation index	0.80
SVM decision value	0.25
SVM RNA-class probability	0.654774
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14900278 118 - 22407834
CCCGGAGCUGCUCCUACUUUU-UUUUAUGCCGUUCUCCGCUUUUCCGUGCGUCGCUCAACGCAACAAUUUAUGGCUAAGCGCGCUUGUGUUUGGCCUAAACGAAUAAACGUAUAUAUGU
...((((...)))).......-...(((((.((((............(((((......)))))....((((.((((((((((....)))))))))))))).))))....)))))..... ( -27.70)
>DroSec_CAF1 57884 119 - 1
CCCGGAGCUGCUCCAACUUUUUUUUUAUGCCGUUCUUCGCUUUUCCGUGCGUCGCUCAACGCAACAAUUUAUGGCUAAGCGCGCUUGUGUUUUGCCUUAAAGUAUAAACGUAUAUUUUU
...((((...)))).........(((((((.................(((((......)))))....((((.(((.((((((....)))))).))).)))))))))))........... ( -25.40)
>DroSim_CAF1 60725 117 - 1
CCCGGAGCUGCUCCUACUUU--UUUUAUGCCGUUCUUCGCUUUUCCGUGCGUCGCUCAACGCAACAAUUUAUGGCUAAGCGCGCUUGUGUUUGGCCUAAAAGUAUAAACGUAUAUUUAU
...((((...))))......--...(((((.(((..(.((((((...(((((......))))).........((((((((((....)))))))))).)))))))..))))))))..... ( -29.80)
>DroYak_CAF1 57525 113 - 1
UCC-GAGCGGCUCCUACUUU---UUUAUGCCGCUCUCCGCUUUUCCGUGCGUCGCUCAACGCAACAAUUUAUGGCUAAGC--GCUUGUGUUUGGCCUAAAAGUAUGAGCGUAUAUAUUU
...-(((((((.........---.....)))))))..(((((...(.(((((......)))))....((((.((((((((--(....))))))))))))).)...)))))......... ( -37.54)
>consensus
CCCGGAGCUGCUCCUACUUU__UUUUAUGCCGUUCUCCGCUUUUCCGUGCGUCGCUCAACGCAACAAUUUAUGGCUAAGCGCGCUUGUGUUUGGCCUAAAAGUAUAAACGUAUAUAUUU
...((((...))))...........(((((.(((....((((((...(((((......))))).........((((((((((....)))))))))).))))))...))))))))..... (-23.98 = -25.35 +   1.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:33 2006