Locus 628

Sequence ID	3L_DroMel_CAF1
Location	1,860,746 – 1,860,838
Length	92
Max. P	0.999446

overview

Window 5

Location	1,860,746 – 1,860,838
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	82.42
Mean single sequence MFE	-32.82
Consensus MFE	-28.32
Energy contribution	-28.48
Covariance contribution	0.16
Combinations/Pair	1.15
Mean z-score	-3.72
Structure conservation index	0.86
SVM decision value	3.61
SVM RNA-class probability	0.999446
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1860746 92 + 23771897
CAUUCGAUGCGUAUACUUGAUAUUGCUAUUGCAACAAUAUCGUGUAUACGCAGUGGGUUACAGUCGAAAUGCUUACCUUCUUGCGGUAGUUG
..((((((((((((((.((((((((.........)))))))).))))))))..((.....))))))))....(((((.......)))))... ( -28.00)
>DroSec_CAF1 742 91 + 1
UAUUCGGUGCGUAUACUUGAUAUUGCUG-UGCAACCAUAUCGAGUAUACGCAGUGGACUUCAGUCGAAAGGUUUACCUUCUUGCGGUAGUUG
....((.(((((((((((((((((((..-.)))...)))))))))))))))).))((((...(.(((((((....)))).))))...)))). ( -32.80)
>DroSim_CAF1 617 91 + 1
AAUUCGGUGCGUAUACUUGAUAUUGCUG-UGCAACCAUAUCGAGUAUACGCAGUGGGCUUCAGUCGGAAGGCUUACCUUCUUGCGGUAGUUG
....((.(((((((((((((((((((..-.)))...)))))))))))))))).))((((...((.((((((....)))))).))...)))). ( -37.40)
>DroEre_CAF1 671 77 + 1
UGCUCGGUGCGUAUACUUGAUAUUUUCG-GGCAGCAAUAUCGCGUAUACGCAGUGGG--------------CGUACCUUCUUGCGGUAGUUG
.(((((.(((((((((.(((((((....-......))))))).))))))))).))))--------------).((((.......)))).... ( -30.00)
>DroYak_CAF1 652 87 + 1
CAUCCGGUGCGUAUACUUGAUAUUUCCG-GGCAACAAUAUCGAGUAUACGCAGUGGGCUACA----AAAGGCUUACCUUCUUGCGGUAGUUG
...(((.(((((((((((((((((....-(....)))))))))))))))))).)))((..((----(((((....)))).)))..))..... ( -35.90)
>consensus
CAUUCGGUGCGUAUACUUGAUAUUGCUG_UGCAACAAUAUCGAGUAUACGCAGUGGGCUACAGUCGAAAGGCUUACCUUCUUGCGGUAGUUG
..((((.(((((((((((((((((((....)))...)))))))))))))))).))))................((((.......)))).... (-28.32 = -28.48 +   0.16)

alignment

secondary structure

dotplot

Window 6

Location	1,860,746 – 1,860,838
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	82.42
Mean single sequence MFE	-26.54
Consensus MFE	-23.34
Energy contribution	-24.34
Covariance contribution	1.00
Combinations/Pair	1.08
Mean z-score	-3.42
Structure conservation index	0.88
SVM decision value	3.47
SVM RNA-class probability	0.999258
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1860746 92 - 23771897
CAACUACCGCAAGAAGGUAAGCAUUUCGACUGUAACCCACUGCGUAUACACGAUAUUGUUGCAAUAGCAAUAUCAAGUAUACGCAUCGAAUG
....((((.......)))).....(((((...........(((((((((..((((((((((...))))))))))..)))))))))))))).. ( -27.10)
>DroSec_CAF1 742 91 - 1
CAACUACCGCAAGAAGGUAAACCUUUCGACUGAAGUCCACUGCGUAUACUCGAUAUGGUUGCA-CAGCAAUAUCAAGUAUACGCACCGAAUA
....((((.......)))).....((((((....)))...((((((((((.(((((.(((...-.))).))))).))))))))))..))).. ( -26.90)
>DroSim_CAF1 617 91 - 1
CAACUACCGCAAGAAGGUAAGCCUUCCGACUGAAGCCCACUGCGUAUACUCGAUAUGGUUGCA-CAGCAAUAUCAAGUAUACGCACCGAAUU
............(((((....)))))..............((((((((((.(((((.(((...-.))).))))).))))))))))....... ( -26.90)
>DroEre_CAF1 671 77 - 1
CAACUACCGCAAGAAGGUACG--------------CCCACUGCGUAUACGCGAUAUUGCUGCC-CGAAAAUAUCAAGUAUACGCACCGAGCA
....((((.......)))).(--------------(.(..(((((((((..((((((......-....))))))..)))))))))..).)). ( -23.30)
>DroYak_CAF1 652 87 - 1
CAACUACCGCAAGAAGGUAAGCCUUU----UGUAGCCCACUGCGUAUACUCGAUAUUGUUGCC-CGGAAAUAUCAAGUAUACGCACCGGAUG
...((((....((((((....)))))----))))).((..((((((((((.((((((......-....)))))).))))))))))..))... ( -28.50)
>consensus
CAACUACCGCAAGAAGGUAAGCCUUUCGACUGAAGCCCACUGCGUAUACUCGAUAUUGUUGCA_CAGCAAUAUCAAGUAUACGCACCGAAUA
....((((.......)))).....................((((((((((.((((((((((...)))))))))).))))))))))....... (-23.34 = -24.34 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:09 2006