Locus 2321

Sequence ID	3L_DroMel_CAF1
Location	6,512,356 – 6,512,449
Length	93
Max. P	0.970216

overview

Window 2

Location	6,512,356 – 6,512,449
Length	93
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	78.66
Mean single sequence MFE	-26.80
Consensus MFE	-14.80
Energy contribution	-14.96
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.78
Structure conservation index	0.55
SVM decision value	1.65
SVM RNA-class probability	0.970216
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6512356 93 + 23771897
CUCAUCC---------CUUCCAC----GACUGACGUCAAUUCGCGCAGACACAUGGCAAGCGCCAUAAACAGCCACCACAAUUGGAAGCUUGCCAUGGGUAGAGCU
(((..((---------(......----..(((.(((......))))))....(((((((((((........))..(((....)))..))))))))))))..))).. ( -29.30)
>DroVir_CAF1 3622 91 + 1
----UCC---------CUUCUUCCAUGCGCUGACGUCAAUUU--ACAGACACAUGGCAAACGCCAUAAGCAGCCACCACAAUUGGAAGCUUGCCAUGGCAACAGCA
----...---------............((((..(((.....--...))).((((((((..((.....)).((..(((....)))..))))))))))....)))). ( -26.00)
>DroGri_CAF1 3832 91 + 1
----UAG---------CUUCUUCUAUGCGCUGACGUCAAUUU--ACAGACACAUGGCAAACGCCAUAAACAGCCACCACAAUUGGAUGCUUGCCAUGGCAACAACA
----.((---------(........((.((((..(((.....--...)))..(((((....)))))...))))))(((....)))..)))(((....)))...... ( -22.10)
>DroSec_CAF1 3896 93 + 1
CUCAUCC---------CUUCCGC----GACUGACGUCAAUUCGCGCAGACACAUGGCAAGCGCCAUAAACAGCCACCACAAUUGGAAGCUUGCCACGAGUAGAGCU
(((....---------((..(((----((.((....))..))))).))((.(.((((((((((........))..(((....)))..)))))))).).)).))).. ( -25.90)
>DroYak_CAF1 4084 102 + 1
CUCAUCCACAUCCCUUCUUCCUC----AACUGACGUCAAUUCGCGCAGACACAUGGCAAGCGCCAUAAACAGGCACCACAAUUGGAAGCUUGCCAUGGGUGGAGCU
....(((((..............----..(((.(((......))))))...(((((((((((((.......))).(((....)))..)))))))))).)))))... ( -38.20)
>DroAna_CAF1 4509 87 + 1
------C---------AUAACCC----CGCUGACGUCAAUUCGCACAGACACAUGGCAAACGCCAUAAACAGCCACCACAAUUGGAUGCUUGCCAUGGCAACGACA
------.---------.......----.((((..(((..........)))..(((((....)))))...))))..(((....))).((.((((....))))))... ( -19.30)
>consensus
____UCC_________CUUCCUC____CACUGACGUCAAUUCGCACAGACACAUGGCAAACGCCAUAAACAGCCACCACAAUUGGAAGCUUGCCAUGGCAACAGCA
..................................(((..........))).((((((((...(((.................)))....))))))))......... (-14.80 = -14.96 +   0.17)

alignment

secondary structure

dotplot

Window 3

Location	6,512,356 – 6,512,449
Length	93
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	78.66
Mean single sequence MFE	-31.70
Consensus MFE	-22.24
Energy contribution	-21.72
Covariance contribution	-0.53
Combinations/Pair	1.18
Mean z-score	-1.50
Structure conservation index	0.70
SVM decision value	0.66
SVM RNA-class probability	0.815462
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6512356 93 - 23771897
AGCUCUACCCAUGGCAAGCUUCCAAUUGUGGUGGCUGUUUAUGGCGCUUGCCAUGUGUCUGCGCGAAUUGACGUCAGUC----GUGGAAG---------GGAUGAG
..(((..((((((((((((..(((....)))..(((......)))))))))))).......(((((.(((....)))))----)))...)---------))..))) ( -33.30)
>DroVir_CAF1 3622 91 - 1
UGCUGUUGCCAUGGCAAGCUUCCAAUUGUGGUGGCUGCUUAUGGCGUUUGCCAUGUGUCUGU--AAAUUGACGUCAGCGCAUGGAAGAAG---------GGA----
..((.(((((((((((.(((.(((....))).)))))).)))))).....(((((((.(((.--..........))))))))))...)).---------)).---- ( -32.40)
>DroGri_CAF1 3832 91 - 1
UGUUGUUGCCAUGGCAAGCAUCCAAUUGUGGUGGCUGUUUAUGGCGUUUGCCAUGUGUCUGU--AAAUUGACGUCAGCGCAUAGAAGAAG---------CUA----
......(((....)))(((.((....((((.((((....((((((....)))))).(((...--.....))))))).)))).....)).)---------)).---- ( -27.10)
>DroSec_CAF1 3896 93 - 1
AGCUCUACUCGUGGCAAGCUUCCAAUUGUGGUGGCUGUUUAUGGCGCUUGCCAUGUGUCUGCGCGAAUUGACGUCAGUC----GCGGAAG---------GGAUGAG
..((((((.((((((((((..(((....)))..(((......))))))))))))).))...(((((.(((....)))))----)))..))---------))..... ( -34.40)
>DroYak_CAF1 4084 102 - 1
AGCUCCACCCAUGGCAAGCUUCCAAUUGUGGUGCCUGUUUAUGGCGCUUGCCAUGUGUCUGCGCGAAUUGACGUCAGUU----GAGGAAGAAGGGAUGUGGAUGAG
...(((((.((((((((((..(((....))).(((.......))))))))))))).((((...(...(..((....)).----.)....)...))))))))).... ( -35.20)
>DroAna_CAF1 4509 87 - 1
UGUCGUUGCCAUGGCAAGCAUCCAAUUGUGGUGGCUGUUUAUGGCGUUUGCCAUGUGUCUGUGCGAAUUGACGUCAGCG----GGGUUAU---------G------
..(((((((((((((((((..(((....)))..(((......))))))))))))).(((.((....)).)))).)))))----)......---------.------ ( -27.80)
>consensus
AGCUCUACCCAUGGCAAGCUUCCAAUUGUGGUGGCUGUUUAUGGCGCUUGCCAUGUGUCUGCGCGAAUUGACGUCAGCG____GAGGAAG_________GGA____
.(((.....((((((((((..(((....)))..(((......))))))))))))).(((..........)))...)))............................ (-22.24 = -21.72 +  -0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:29 2006