Locus 8142

Sequence ID X_DroMel_CAF1
Location 20,261,556 – 20,261,663
Length 107
Max. P 0.999769
window13379 window13380

overview

Window 9

Location 20,261,556 – 20,261,663
Length 107
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 73.59
Mean single sequence MFE -44.57
Consensus MFE -28.44
Energy contribution -29.00
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -2.50
Structure conservation index 0.64
SVM decision value 3.64
SVM RNA-class probability 0.999481
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20261556 107 + 22224390
UUUGCUAGCUAGGCGCACAGUCAGGGCCACAAAAGUGUGGCCCGACGAGGCAAUUUC-----------UUUUGCUUGCGCCACACAGAUCGUGUGCUGUGUGCCAUUG-GGAUAAGACC
...........(((((((((...((((((((....))))))))..((((((((....-----------..)))))).)).(((((.....))))))))))))))....-.......... ( -45.00)
>DroSec_CAF1 8280 98 + 1
UCUGCUGGGCAGGCGCACAGUCAGGGCCACAAAAGUGUGGCCCGACGAGGCAGUUUC-----------U-UUGCUUGCGCCAC--------UGAUCUGUGUGCCAUUG-GGAUAAGCCA
.......(((.((((((((((((((((((((....))))))))(.((((((((....-----------.-)))))).)).)..--------))).)))))))))((..-..))..))). ( -45.10)
>DroEre_CAF1 7884 109 + 1
GCGCCUGGGGAAGCGUACAGUCAGGGGCACAAAAGUGUGGCC--GCAAGGCAAUUUCACUCGAGCCCCUUUUGCUUGCGCCAC--------CUGUCUGUGUGCCAUUGGGGAUGAGGCC
..((((......((((((((.(((((((.....((((..(((--....))).....))))(((((.......))))).))).)--------))).))))))))((((...)))))))). ( -43.60)
>consensus
UCUGCUGGGCAGGCGCACAGUCAGGGCCACAAAAGUGUGGCCCGACGAGGCAAUUUC___________UUUUGCUUGCGCCAC________UGAUCUGUGUGCCAUUG_GGAUAAGACC
...........(((((((((...((((((((....))))))))....((((((.................))))))...................)))))))))............... (-28.44 = -29.00 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,261,556 – 20,261,663
Length 107
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 73.59
Mean single sequence MFE -40.70
Consensus MFE -27.22
Energy contribution -28.00
Covariance contribution 0.78
Combinations/Pair 1.06
Mean z-score -2.53
Structure conservation index 0.67
SVM decision value 4.04
SVM RNA-class probability 0.999769
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20261556 107 - 22224390
GGUCUUAUCC-CAAUGGCACACAGCACACGAUCUGUGUGGCGCAAGCAAAA-----------GAAAUUGCCUCGUCGGGCCACACUUUUGUGGCCCUGACUGUGCGCCUAGCUAGCAAA
((......))-...((((((((((........))))))((((((.((((..-----------....))))...(((((((((((....)))))))).)))..))))))..))))..... ( -43.70)
>DroSec_CAF1 8280 98 - 1
UGGCUUAUCC-CAAUGGCACACAGAUCA--------GUGGCGCAAGCAA-A-----------GAAACUGCCUCGUCGGGCCACACUUUUGUGGCCCUGACUGUGCGCCUGCCCAGCAGA
.(((......-....(((.(((((.(((--------..((((...(((.-.-----------.....)))..))))((((((((....)))))))))))))))).))).)))....... ( -39.30)
>DroEre_CAF1 7884 109 - 1
GGCCUCAUCCCCAAUGGCACACAGACAG--------GUGGCGCAAGCAAAAGGGGCUCGAGUGAAAUUGCCUUGC--GGCCACACUUUUGUGCCCCUGACUGUACGCUUCCCCAGGCGC
.(((...........)))..((((.(((--------(.(((((((....(((.((((((((.(......))))).--))))...)))))))))))))).)))).((((......)))). ( -39.10)
>consensus
GGCCUUAUCC_CAAUGGCACACAGAACA________GUGGCGCAAGCAAAA___________GAAAUUGCCUCGUCGGGCCACACUUUUGUGGCCCUGACUGUGCGCCUACCCAGCAGA
...............(((.(((((...............((....)).............................((((((((....))))))))...))))).)))........... (-27.22 = -28.00 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:50 2006