Locus 1728

Sequence ID	2R_DroMel_CAF1
Location	6,501,934 – 6,502,051
Length	117
Max. P	0.995642

overview

Window 0

Location	6,501,934 – 6,502,051
Length	117
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	89.86
Mean single sequence MFE	-37.80
Consensus MFE	-32.20
Energy contribution	-32.20
Covariance contribution	-0.00
Combinations/Pair	1.10
Mean z-score	-2.35
Structure conservation index	0.85
SVM decision value	2.60
SVM RNA-class probability	0.995642
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6501934 117 + 20766785
CAUACCCUUUUCCUACCCUCUUUGAAGCACCCGGCGGACCUGGCCCAAUAGUUGCCCAUUACUCAGGCUUUGGAUAUUGGCCAUUUCAACGGGCCGGGCCCUAAAGUACGUGUAUGC
(((((.(...................((.....))((.((((((((...(((........)))..((((.........))))........)))))))).))........).))))). ( -30.90)
>DroSec_CAF1 69212 117 + 1
CAUACCCUUUCCCUACCCUCUUUGAAGCACCCGGCGGACCUGGCCCAAUAGUUGGCCAUUACUCAGACUCUGGAUAUUGGCCAUUUCAACGGGCCGGGCCCUAAAGUACGUGUAUGC
(((((.(...................((.....))((.((((((((......((((((.((..(((...)))..)).)))))).......)))))))).))........).))))). ( -39.52)
>DroSim_CAF1 55555 117 + 1
CAUACCCUUUCCCUACCCUCUUUGAAGCACCCGGCGGACCUGGCCCAAUAGUUGGCCAUUACUCAGGCUCUGGAUAUUGGCCAUUUCAACGGGCCGGGCCCUAAAGUACGUGUAUGC
(((((.(...................((.....))((.((((((((......((((((.((..(((...)))..)).)))))).......)))))))).))........).))))). ( -39.52)
>DroEre_CAF1 71421 111 + 1
CAUACCCUUUCCCUACCCUUUGCGAAGCACCCGGCGGACCUGGCCCAAUAGUUGGCCAUUACUCAGGCUCUGGAUAUUGGCCAUUCCAACGGGCCAGGCCCAAAAGU------GUGC
(((((..........((...(((...)))...)).((.((((((((......((((((.((..(((...)))..)).)))))).......)))))))).))....))------))). ( -40.92)
>DroYak_CAF1 72801 108 + 1
--UACCCUUUCCCUACCCUUUUUGCCACACUCGGCGGACCUGGC-CAAUAGCUGGCCAUUACUCAGGCUCUGGAUAUUGGCCAUUUCAACGGGCCAGGCCCAAAAGU------AUGC
--...............(((((.(((......)))((.((((((-(......((((((.((..(((...)))..)).))))))........))))))).))))))).------.... ( -38.14)
>consensus
CAUACCCUUUCCCUACCCUCUUUGAAGCACCCGGCGGACCUGGCCCAAUAGUUGGCCAUUACUCAGGCUCUGGAUAUUGGCCAUUUCAACGGGCCGGGCCCUAAAGUACGUGUAUGC
...................................((.((((((((......((((((.((..(((...)))..)).)))))).......)))))))).))................ (-32.20 = -32.20 +  -0.00)

alignment

secondary structure

dotplot

Window 1

Location	6,501,934 – 6,502,051
Length	117
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	89.86
Mean single sequence MFE	-44.94
Consensus MFE	-35.94
Energy contribution	-37.44
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-2.49
Structure conservation index	0.80
SVM decision value	2.05
SVM RNA-class probability	0.986739
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6501934 117 - 20766785
GCAUACACGUACUUUAGGGCCCGGCCCGUUGAAAUGGCCAAUAUCCAAAGCCUGAGUAAUGGGCAACUAUUGGGCCAGGUCCGCCGGGUGCUUCAAAGAGGGUAGGAAAAGGGUAUG
.(((((.(.((((((((.(((((((.....((..(((((......((.....))..((((((....)))))))))))..)).))))))).))......)))))).)......))))) ( -38.50)
>DroSec_CAF1 69212 117 - 1
GCAUACACGUACUUUAGGGCCCGGCCCGUUGAAAUGGCCAAUAUCCAGAGUCUGAGUAAUGGCCAACUAUUGGGCCAGGUCCGCCGGGUGCUUCAAAGAGGGUAGGGAAAGGGUAUG
.(((((..((((((..(((((.((((((......((((((.((..(((...)))..)).)))))).....)))))).)))))...))))))(((............)))...))))) ( -44.30)
>DroSim_CAF1 55555 117 - 1
GCAUACACGUACUUUAGGGCCCGGCCCGUUGAAAUGGCCAAUAUCCAGAGCCUGAGUAAUGGCCAACUAUUGGGCCAGGUCCGCCGGGUGCUUCAAAGAGGGUAGGGAAAGGGUAUG
.(((((..((((((..(((((.((((((......((((((.((..(((...)))..)).)))))).....)))))).)))))...))))))(((............)))...))))) ( -44.30)
>DroEre_CAF1 71421 111 - 1
GCAC------ACUUUUGGGCCUGGCCCGUUGGAAUGGCCAAUAUCCAGAGCCUGAGUAAUGGCCAACUAUUGGGCCAGGUCCGCCGGGUGCUUCGCAAAGGGUAGGGAAAGGGUAUG
((((------.((..(((((((((((((.(((..((((((.((..(((...)))..)).)))))).))).)))))))))))))..))))))(((.(........).)))........ ( -51.30)
>DroYak_CAF1 72801 108 - 1
GCAU------ACUUUUGGGCCUGGCCCGUUGAAAUGGCCAAUAUCCAGAGCCUGAGUAAUGGCCAGCUAUUG-GCCAGGUCCGCCGAGUGUGGCAAAAAGGGUAGGGAAAGGGUA--
...(------((((((((((((((((.((.(...((((((.((..(((...)))..)).)))))).).)).)-)))))))))((((....))))...)))))))...........-- ( -46.30)
>consensus
GCAUACACGUACUUUAGGGCCCGGCCCGUUGAAAUGGCCAAUAUCCAGAGCCUGAGUAAUGGCCAACUAUUGGGCCAGGUCCGCCGGGUGCUUCAAAGAGGGUAGGGAAAGGGUAUG
.......((((((((.(((((.((((((......((((((.((..(((...)))..)).)))))).....)))))).)))))(((...............)))......)))))))) (-35.94 = -37.44 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:53 2006