Locus 5783

Sequence ID	X_DroMel_CAF1
Location	15,006,888 – 15,006,979
Length	91
Max. P	0.911970

overview

Window 3

Location	15,006,888 – 15,006,979
Length	91
Sequences	4
Columns	91
Reading direction	forward
Mean pairwise identity	88.24
Mean single sequence MFE	-32.95
Consensus MFE	-26.06
Energy contribution	-28.75
Covariance contribution	2.69
Combinations/Pair	1.07
Mean z-score	-2.17
Structure conservation index	0.79
SVM decision value	1.08
SVM RNA-class probability	0.911970
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15006888 91 + 22224390
UGCUGUUGCAGUUGCAGUUGCAUUUGCUAUUGGAGUUGCAUUCAUGGCCAUGGGCGGCCAAUUGCGGGAUUGCAUUUCCAUAGGCAGGCCA
(((..((((....))))..)))((((((..(((((.((((.((.(((((......))))).......)).)))).)))))..))))))... ( -32.40)
>DroSec_CAF1 24560 86 + 1
UGCAGUUGCAG---CAAAUGCA--AGCUAUUGGAGUUGCAUUCAUGGCCAUGGUCGGCCAAUUGCGGGAUCGCAUUUCCAUAGGCAGGCCG
.((..(((((.---....))))--)(((..(((((.(((((((.(((((......)))))......)))).))).)))))..)))..)).. ( -28.80)
>DroEre_CAF1 25619 85 + 1
UGCAGUUGCAGU------UGCAUUUGCCAUUGGAGCUGCACUCAUGGCCAUGGGCGGCCAAUUGCCGUAUUGCAUUUCCAUAGGCAGGCCG
(((((((.((((------.((....)).)))).))))))).....((((....(((((.....)))))..(((..........))))))). ( -33.70)
>DroYak_CAF1 24797 91 + 1
UGCAGUUGCAGUUGCAAUUGCAUUUGCUAUUGGAGUUGCACUCAUGGCCAUGGGCGGCCAAUUGCGGGAUUGCAUUUCCAUAGGCAGGCCG
(((((((((....)))))))))((((((..(((((.((((.((.(((((......))))).......)).)))).)))))..))))))... ( -36.90)
>consensus
UGCAGUUGCAGU__CAAUUGCAUUUGCUAUUGGAGUUGCACUCAUGGCCAUGGGCGGCCAAUUGCGGGAUUGCAUUUCCAUAGGCAGGCCG
(((((((((....))))))))).(((((..(((((.((((.((.(((((......))))).......)).)))).)))))..))))).... (-26.06 = -28.75 +   2.69)

alignment

secondary structure

dotplot

Window 4

Location	15,006,888 – 15,006,979
Length	91
Sequences	4
Columns	91
Reading direction	reverse
Mean pairwise identity	88.24
Mean single sequence MFE	-26.15
Consensus MFE	-23.34
Energy contribution	-23.15
Covariance contribution	-0.19
Combinations/Pair	1.04
Mean z-score	-1.77
Structure conservation index	0.89
SVM decision value	0.90
SVM RNA-class probability	0.878499
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15006888 91 - 22224390
UGGCCUGCCUAUGGAAAUGCAAUCCCGCAAUUGGCCGCCCAUGGCCAUGAAUGCAACUCCAAUAGCAAAUGCAACUGCAACUGCAACAGCA
..((.((....((((..((((.((.......((((((....)))))).)).))))..))))...(((..(((....)))..)))..)))). ( -25.10)
>DroSec_CAF1 24560 86 - 1
CGGCCUGCCUAUGGAAAUGCGAUCCCGCAAUUGGCCGACCAUGGCCAUGAAUGCAACUCCAAUAGCU--UGCAUUUG---CUGCAACUGCA
(((((..((...))...((((....))))...))))).....(((...((((((((((.....)).)--))))))))---))((....)). ( -23.60)
>DroEre_CAF1 25619 85 - 1
CGGCCUGCCUAUGGAAAUGCAAUACGGCAAUUGGCCGCCCAUGGCCAUGAGUGCAGCUCCAAUGGCAAAUGCA------ACUGCAACUGCA
..((.((((..((((..((((....(((...(((....)))..))).....))))..))))..))))..(((.------...)))...)). ( -28.10)
>DroYak_CAF1 24797 91 - 1
CGGCCUGCCUAUGGAAAUGCAAUCCCGCAAUUGGCCGCCCAUGGCCAUGAGUGCAACUCCAAUAGCAAAUGCAAUUGCAACUGCAACUGCA
.....(((...((((..((((......((..((((((....))))))))..))))..))))...)))..((((.((((....)))).)))) ( -27.80)
>consensus
CGGCCUGCCUAUGGAAAUGCAAUCCCGCAAUUGGCCGCCCAUGGCCAUGAAUGCAACUCCAAUAGCAAAUGCAAUUG__ACUGCAACUGCA
.((....))..((((..((((......((..((((((....))))))))..))))..))))...((...((((........))))...)). (-23.34 = -23.15 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:16 2006