Locus 1081

Sequence ID	3L_DroMel_CAF1
Location	3,158,575 – 3,158,746
Length	171
Max. P	0.881087

overview

Window 2

Location	3,158,575 – 3,158,666
Length	91
Sequences	6
Columns	91
Reading direction	forward
Mean pairwise identity	86.71
Mean single sequence MFE	-39.12
Consensus MFE	-29.90
Energy contribution	-31.02
Covariance contribution	1.11
Combinations/Pair	1.12
Mean z-score	-2.52
Structure conservation index	0.76
SVM decision value	0.21
SVM RNA-class probability	0.637449
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3158575 91 + 23771897
CCUCUGAUAUGGAACCCAGACGCUUGCGGAGAUUAGCAGGCGUUUGGUGGGGAACCGGAGUGACCAGUUUGUCCCGCGACGUCUUGCGGGA
.((((..........((((((((((((........)))))))))))).((....))))))...........((((((((....)))))))) ( -39.50)
>DroSec_CAF1 5558 88 + 1
CCUCCGAUAUGGAACCCAGACGCUUGCGGAGAUUAGCAGGCGUUUGGUGGGGAACCGGAGUG---AGUUUGUCCCGCGACGUCUUGCGGGA
.((((..........((((((((((((........)))))))))))).((....))))))..---......((((((((....)))))))) ( -42.20)
>DroSim_CAF1 5929 88 + 1
CCUCCGAUAUGGAACCCAGACGCUUGCGGAGAUUAGCAGGCGUUUGGUGGGGAACCGGAGUG---AGUUUGUCCCGCGACGUCUUGCGGGA
.((((..........((((((((((((........)))))))))))).((....))))))..---......((((((((....)))))))) ( -42.20)
>DroEre_CAF1 6630 91 + 1
CCUCAGAAAUGGAACCCAGACGCUUGCGGAGAUUAGCAGGCGUUUGAUGGGGAACCGGAGUGUCCAGUUUGUCCCGCGAAGCCUUGCGGGA
...((((..((((.(((((((((((((........)))))))))))..((....))))....)))).))))((((((((....)))))))) ( -39.80)
>DroYak_CAF1 6197 91 + 1
CCUCAGAAAUGGAACCCAGACGCUUGCGGAGAUUAGCAGGCGUUUGGUGGGGAACCGGAGUGACCAGUUUGUCCCGCGACGUCUUGCGGGC
...((((..(((...((((((((((((........))))))))))))(((....)))......))).)))).(((((((....))))))). ( -38.60)
>DroAna_CAF1 5391 88 + 1
CCUCCGAAAUGGAUCCCAGACGCAUUCGCAGAUUGGCCGGCGUUUGAGGAGG---CUGGUGGGCCAGCUUAUCUUGCGAUGUCUUUCGCGA
..(((.....)))((((((((((....((......))..))))))).)))((---((((....))))))....((((((......)))))) ( -32.40)
>consensus
CCUCCGAAAUGGAACCCAGACGCUUGCGGAGAUUAGCAGGCGUUUGGUGGGGAACCGGAGUG_CCAGUUUGUCCCGCGACGUCUUGCGGGA
.(((...........((((((((((((........))))))))))))(((....))))))...........((((((((....)))))))) (-29.90 = -31.02 +   1.11)

alignment

secondary structure

dotplot

Window 3

Location	3,158,643 – 3,158,746
Length	103
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	71.29
Mean single sequence MFE	-40.47
Consensus MFE	-16.27
Energy contribution	-16.50
Covariance contribution	0.23
Combinations/Pair	1.26
Mean z-score	-2.06
Structure conservation index	0.40
SVM decision value	0.92
SVM RNA-class probability	0.881087
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3158643 103 - 23771897
CUGUCAGCUCCACGGAACUCUUGUAUGAAAGGGCCAUGGCCAGGUUCUACGAAGCAGUGGAACUCGAGCAGGCUUCCAAGUCC----CGCAAGACGUC----GCGGGACAA
.............((((..(((((.(((...(((....)))..(((((((......)))))))))).))))).))))..((((----(((........----))))))).. ( -40.10)
>DroVir_CAF1 6455 109 - 1
CGGUCAGCUCCACGGAGCUACUCUACGAGCGUGCCAUGGCCCGUUUUUACGAGGCCGUGGAACUGGAGCAGGCGGCCAAAAGCAAGGUGA-AGA-CUGCGGCACAGGAGAA
.....(((((....))))).((((..(.((((.(((((((((((....))).)))))))).))....((((.(.(((........)))..-.).-)))).)).).)))).. ( -41.70)
>DroWil_CAF1 5880 109 - 1
CAGUUAGCUCCACUGAAUUGCUUUAUGAACGGGCCAUGGCCCGAUUCUAUGAGGCUGUGGAGCUGGAACAGGCAUCGAAAUCCGCGCCGAAA--CCUGAAAUACCGGAAAA
...((((((((((......(((((((((((((((....))))).))).))))))).))))))))))..((((..(((..........)))..--))))............. ( -42.50)
>DroMoj_CAF1 6091 106 - 1
CGGUCAGCUCCACGGAGCUCCUCUACGAACGUGCCAUGGCGCGUUUCUACGAAGCCGUGGAAUUGGAGCAAGCCUCCAAAUCAAAGGCGA-AGA-CUG---CAAAGGCCCA
.(((((((((....)))))..(((.(((((((((....)))))))).......(((...((.((((((.....)))))).))...)))).-)))-...---....)))).. ( -40.50)
>DroAna_CAF1 5456 103 - 1
CCGUUAGCUCCACGGAGCUGCUCUACGAGCGUGCGAUGGCCCGGUUCUAUGAGGCCGUAGAACUGGAGCAGGCCUCCAAGUCG----CGAAAGACAUC----GCAAGAUAA
.....(((((....)))))((((...)))).((((((((((((((((((((....))))))))))).)).(((......))).----(....).))))----)))...... ( -43.80)
>DroPer_CAF1 22245 103 - 1
CCGUGAGCUCCACCGAGCUGCUCUACGAGCGAGCAAUGGCGAGAUUCUAUGAGGCGGUAGAGCUGGAGCAAGCCGCCAAGUCG----AGAAAGGCCUC----CCAGGACAG
((...(((((....)))))((((.......))))..(((.(((.........((((((...((....))..))))))..(((.----.....))))))----))))).... ( -34.20)
>consensus
CCGUCAGCUCCACGGAGCUGCUCUACGAACGUGCCAUGGCCCGAUUCUACGAGGCCGUGGAACUGGAGCAGGCCUCCAAAUCC____CGAAAGACCUC____ACAGGACAA
..(((.((((((.................((.((....)).)).((((((......)))))).)))))).)))...................................... (-16.27 = -16.50 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:32 2006