Locus 1781

Sequence ID	X_DroMel_CAF1
Location	4,912,412 – 4,912,518
Length	106
Max. P	0.978170

overview

Window 9

Location	4,912,412 – 4,912,518
Length	106
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	77.15
Mean single sequence MFE	-30.32
Consensus MFE	-18.55
Energy contribution	-19.50
Covariance contribution	0.95
Combinations/Pair	1.23
Mean z-score	-2.07
Structure conservation index	0.61
SVM decision value	1.32
SVM RNA-class probability	0.941283
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4912412 106 + 22224390
CCGCUCCUAGAUGCAAACGCUGCUGCGGCAGCUGCAGCUGCUUUGUUGGACACAAAGCCACUCAUCCAAAGCGUAAGUAAUCCAAUUGGUCAGCCACUAAAUACGC
.((((....((((.....(((((.((....)).))))).(((((((.....)))))))....))))...))))...(((.......(((....))).....))).. ( -28.20)
>DroPse_CAF1 29741 94 + 1
------AUGGAUGCAAACGCAGCGGCAGCGGCUGCCGCUGCGCUGCUCGACACAAAGCCACUCAUCCAAAGCGUAAGUGUUCCACCCAUUUUACUACA------AC
------.((((((....(((((((((((...)))))))))))..(((........)))....))))))..((....))....................------.. ( -31.90)
>DroSec_CAF1 63235 106 + 1
CCGCUCCUGGAUGCAAACGCUGCUGCGGCAGCUGCAGCUGCCUUGUUGGACACAAAGCCACUCAUCCAAAGCGUAAGUAAUCCAAUUGGUCAGCCACUAAAUACGC
..((...(((((((..(((((.....((((((....))))))...(((((..............))))))))))..)).)))))..(((....)))........)) ( -30.14)
>DroEre_CAF1 66411 106 + 1
CCGCUCCUGGAUGCAAAUGCUGCAGCGGCAGCUGCAGCUGCCUUAUUGGACACAAAGCCACUCAUCCAAAGCGUAAGUAAUCCAUUUGGUCAACCACUAAAUAUGC
.((((..((((((.....((((((((....))))))))((((.....)).))..........)))))).))))..........(((((((.....))))))).... ( -33.60)
>DroWil_CAF1 24042 100 + 1
---CUAUUGGAUGCCAAUGCAGCAGCUGCUGCAGCAGCCGCUCUUCUGGAUACUAAACCGCUCAUUCAAAGCGUAAGUGUUACAUUUACUCGAGAAGU---UGCUC
---.....((.(((...((((((....))))))))).))((.(((((.((.........(((.......)))(((((((...))))))))).))))).---.)).. ( -31.30)
>DroYak_CAF1 64213 106 + 1
CCGCUCCUGGACGCAAAUGCUGCUGCAGCAGCUGCAGCUGCCUUACUGGACACAAAGCCACUCAUCCAAAGCGUAAGUAAUCCAUUUGGUCAACCACUAAAUACAC
.((((..((((.......((.(((((((...))))))).)).....(((........)))....)))).))))..........(((((((.....))))))).... ( -26.80)
>consensus
CCGCUCCUGGAUGCAAACGCUGCUGCGGCAGCUGCAGCUGCCUUGCUGGACACAAAGCCACUCAUCCAAAGCGUAAGUAAUCCAUUUGGUCAACCACUAAAUACGC
.((((..((((((.....((.(((((((...))))))).)).....(((........)))..)))))).))))................................. (-18.55 = -19.50 +   0.95)

alignment

secondary structure

dotplot

Window 0

Location	4,912,412 – 4,912,518
Length	106
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	77.15
Mean single sequence MFE	-38.27
Consensus MFE	-26.78
Energy contribution	-26.98
Covariance contribution	0.20
Combinations/Pair	1.43
Mean z-score	-2.29
Structure conservation index	0.70
SVM decision value	1.81
SVM RNA-class probability	0.978170
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4912412 106 - 22224390
GCGUAUUUAGUGGCUGACCAAUUGGAUUACUUACGCUUUGGAUGAGUGGCUUUGUGUCCAACAAAGCAGCUGCAGCUGCCGCAGCAGCGUUUGCAUCUAGGAGCGG
..(((((((((((....)).)))))).)))...(((((((((((....(((((((.....))))))).(((((.((....)).))))).....)))))).))))). ( -37.50)
>DroPse_CAF1 29741 94 - 1
GU------UGUAGUAAAAUGGGUGGAACACUUACGCUUUGGAUGAGUGGCUUUGUGUCGAGCAGCGCAGCGGCAGCCGCUGCCGCUGCGUUUGCAUCCAU------
..------.........((((((.((.(((...(((((.....))))).....)))))..(((((((((((((((...))))))))))).))))))))))------ ( -40.60)
>DroSec_CAF1 63235 106 - 1
GCGUAUUUAGUGGCUGACCAAUUGGAUUACUUACGCUUUGGAUGAGUGGCUUUGUGUCCAACAAGGCAGCUGCAGCUGCCGCAGCAGCGUUUGCAUCCAGGAGCGG
..(((((((((((....)).)))))).)))...(((((((((((....(((((((.....))))))).(((((.((....)).))))).....)))))).))))). ( -39.50)
>DroEre_CAF1 66411 106 - 1
GCAUAUUUAGUGGUUGACCAAAUGGAUUACUUACGCUUUGGAUGAGUGGCUUUGUGUCCAAUAAGGCAGCUGCAGCUGCCGCUGCAGCAUUUGCAUCCAGGAGCGG
........(((((((.(.....).)))))))..(((((((((((....(((((((.....))))))).((((((((....)))))))).....)))))).))))). ( -41.90)
>DroWil_CAF1 24042 100 - 1
GAGCA---ACUUCUCGAGUAAAUGUAACACUUACGCUUUGAAUGAGCGGUUUAGUAUCCAGAAGAGCGGCUGCUGCAGCAGCUGCUGCAUUGGCAUCCAAUAG---
..((.---.(((((.((((.......))(((..(((((.....)))))....))).)).)))))(((((((((....)))))))))))(((((...)))))..--- ( -33.70)
>DroYak_CAF1 64213 106 - 1
GUGUAUUUAGUGGUUGACCAAAUGGAUUACUUACGCUUUGGAUGAGUGGCUUUGUGUCCAGUAAGGCAGCUGCAGCUGCUGCAGCAGCAUUUGCGUCCAGGAGCGG
..(((.((..(((....)))....)).)))...(((((((((((.(((((((((.......)))))).(((((((...)))))))..)))...)))))).))))). ( -36.40)
>consensus
GCGUAUUUAGUGGUUGACCAAAUGGAUUACUUACGCUUUGGAUGAGUGGCUUUGUGUCCAACAAGGCAGCUGCAGCUGCCGCAGCAGCAUUUGCAUCCAGGAGCGG
..........(((....))).............(((((((((((....(((((((.....))))))).(((((.((....)).))))).....))))))).)))). (-26.78 = -26.98 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:44 2006