Locus 7159

Sequence ID	3L_DroMel_CAF1
Location	19,206,936 – 19,207,082
Length	146
Max. P	0.545182

overview

Window 8

Location	19,206,936 – 19,207,042
Length	106
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	79.08
Mean single sequence MFE	-36.90
Consensus MFE	-25.19
Energy contribution	-25.50
Covariance contribution	0.31
Combinations/Pair	1.04
Mean z-score	-1.56
Structure conservation index	0.68
SVM decision value	-0.01
SVM RNA-class probability	0.526356
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19206936 106 - 23771897
UUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GAAGCUCCGGCCUAGCACUUUGCUUAGGAGGCUCCUUCAG----GACGCUUUCAGGACAGGAC--------
.........(((((((((((((.....)))))))..))))))(..((--((((((((((((((((.....)))....)))))......)----)).)))))))...).....-------- ( -38.00)
>DroSec_CAF1 35252 94 - 1
UUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GAAC-UCCGGCCUAGCACUUUGCUUAGGAGGCUCCUUCA---------------GGACAGGAC--------
.........(((((((((((((.....)))))))..))))))(((.(--((.(-(((.....(((.....)))..))))..)))))).---------------.........-------- ( -32.70)
>DroEre_CAF1 37924 99 - 1
UUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GUAGCUCCGGCCUAGCACUUUGCUUAGGAGGCUCCUUCAG------CGCUUC-----CAGGAC--------
((((.....(((((((((((((.....)))))))..)))))).....--)))).(((.....(((.....)))..((((((.(.....)------.)))))-----).))).-------- ( -34.00)
>DroAna_CAF1 25708 118 - 1
UUACAAAAAGCUGCCACAGGCAACACAUGUCUGUUAGGGAGCGGAUGUGAAAACUCCGGCCUAACACUUUGCUUAG-AGGCUCCUUUGGAGGCGAAGCUUUCAGGGGU-GUCCUUGCCUC
.........(((.(((((((((.....)))))))..)).)))(((.((....)))))(((((((........))))-.(((.(((((((((((...))))))))))).-)))...))).. ( -42.90)
>consensus
UUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG__GAAGCUCCGGCCUAGCACUUUGCUUAGGAGGCUCCUUCAG______CGCUUU__GGACAGGAC________
.........(((((((((((((.....)))))))..))))))(((.........)))((((((((.....)))....)))))...................................... (-25.19 = -25.50 +   0.31)

alignment

secondary structure

dotplot

Window 9

Location	19,206,964 – 19,207,082
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.35
Mean single sequence MFE	-25.32
Consensus MFE	-18.05
Energy contribution	-19.04
Covariance contribution	0.99
Combinations/Pair	1.05
Mean z-score	-1.67
Structure conservation index	0.71
SVM decision value	0.02
SVM RNA-class probability	0.545182
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19206964 118 - 23771897
UAUGUAAAUAUUUCAACACAAAUUAAAAUCAAAAUUAAAAUUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GAAGCUCCGGCCUAGCACUUUGCUUAGGAGG
.................................................(((((((((((((.....)))))))..))))))(((.(--....))))..((((((.....)).))))... ( -27.60)
>DroSec_CAF1 35269 117 - 1
UAUGUAAAUAUUUCAACACAAAUUAAAAUCAAAAUUAAAAUUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GAAC-UCCGGCCUAGCACUUUGCUUAGGAGG
..........(((((.(.....((((........))))...........(((((((((((((.....)))))))..)))))).).))--)))(-(((.....(((.....)))..)))). ( -27.60)
>DroSim_CAF1 39439 91 - 1
UAUGUAAAUAUUUCAACACAAAUUAAAAUCAAAAUUAAAAUUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GAAG---------------------------
..........(((((.(.....((((........))))...........(((((((((((((.....)))))))..)))))).).))--))).--------------------------- ( -19.20)
>DroEre_CAF1 37945 118 - 1
UAUGUAAAUAUUUCAACACAAAUUAAAAUCAAAAUUAAAAUUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG--GUAGCUCCGGCCUAGCACUUUGCUUAGGAGG
........................................((((.....(((((((((((((.....)))))))..)))))).....--))))((((.....(((.....)))..)))). ( -29.00)
>DroAna_CAF1 25747 119 - 1
UAUGUAAAUAUUUCAACACAAAUUAAAAUCAAAAUUAAAAUUACAAAAAGCUGCCACAGGCAACACAUGUCUGUUAGGGAGCGGAUGUGAAAACUCCGGCCUAACACUUUGCUUAG-AGG
...(((((.........................................(((.(((((((((.....)))))))..)).)))(((.((....)))))..........)))))....-... ( -23.20)
>consensus
UAUGUAAAUAUUUCAACACAAAUUAAAAUCAAAAUUAAAAUUACAAAAAGCUGCCGCAGGCAACACAUGUCUGUUGGGUAGCGGAUG__GAAGCUCCGGCCUAGCACUUUGCUUAGGAGG
.................................................(((((((((((((.....)))))))..))))))...........((((.....(((.....)))..)))). (-18.05 = -19.04 +   0.99)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:38 2006