Locus 315

Sequence ID	X_DroMel_CAF1
Location	995,122 – 995,213
Length	91
Max. P	0.959862

overview

Window 8

Location	995,122 – 995,213
Length	91
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.38
Mean single sequence MFE	-32.04
Consensus MFE	-18.95
Energy contribution	-19.51
Covariance contribution	0.56
Combinations/Pair	1.12
Mean z-score	-3.00
Structure conservation index	0.59
SVM decision value	1.45
SVM RNA-class probability	0.955116
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 995122 91 + 22224390
GAAAAUGCAAGGAUGCUGCGAGGAACGGGCG-GGAAAUUCCAUGGCAA-UGUG--------------------GGCGGAAGUGGGUGAUGGAAUUC-------CGCUUUUCUUGCAUGAA
......(((....)))(((((((((..((((-(((..((((((.((..-....--------------------.((....))..)).)))))))))-------))))))))))))).... ( -32.30)
>DroSec_CAF1 77669 92 + 1
GAAAAUGCAAGGAUGCUGCGAGGAACGGGCG-GAAAAUUCCAUGGCAAAAGUG--------------------GGCGGAAGUGGGUGAUGGAAUUC-------CGCUUUUCUUGCAUGAA
......(((....)))(((((((((..((((-((..(((((((.((.......--------------------.((....))..)).)))))))))-------))))))))))))).... ( -32.40)
>DroSim_CAF1 57169 92 + 1
GAAAAUGCAAGGAUGCUGCGAGGAACGGGCG-GAAAAUUCCAUGGCAAAAGUG--------------------GGCGGAAGUGGGUGAUGGAAUUC-------CGCUUUUCUUGCAUGAA
......(((....)))(((((((((..((((-((..(((((((.((.......--------------------.((....))..)).)))))))))-------))))))))))))).... ( -32.40)
>DroEre_CAF1 91187 92 + 1
GAAAAUCCAAGGAUGCUGAGAGGAACGGGCGGAAAAACUGCAUGGCAA-UGUG--------------------GGCGGAAGUGGGUGAUGGAAUUC-------CGCUUUUCUCGCAUGAA
............((((.((((((....(((((((...(..(((....)-))..--------------------)((....))...........)))-------))))))))))))))... ( -27.60)
>DroYak_CAF1 84138 118 + 1
GAAAAUGCAAGGACGCUGUGAGGAGCGGGCG-AAAAACUCCACGGCAA-UGUGGACGGAAGUGGGUGGAAGUGGGCGGAAGUGGGUGAUGGAAUUCCUUGUCUCGCUUUUCUUGCAUGAA
....(((((((((((((......))))((((-(...(((((((..(..-...).((....))..)))).)))..((....)).((..(.((....)))..))))))).)))))))))... ( -35.50)
>consensus
GAAAAUGCAAGGAUGCUGCGAGGAACGGGCG_GAAAAUUCCAUGGCAA_UGUG____________________GGCGGAAGUGGGUGAUGGAAUUC_______CGCUUUUCUUGCAUGAA
................(((((((((..((((....((((((((.((............................((....))..)).))))))))........))))))))))))).... (-18.95 = -19.51 +   0.56)

alignment

secondary structure

dotplot

Window 9

Location	995,122 – 995,213
Length	91
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.38
Mean single sequence MFE	-21.88
Consensus MFE	-14.02
Energy contribution	-13.70
Covariance contribution	-0.32
Combinations/Pair	1.18
Mean z-score	-2.80
Structure conservation index	0.64
SVM decision value	1.51
SVM RNA-class probability	0.959862
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 995122 91 - 22224390
UUCAUGCAAGAAAAGCG-------GAAUUCCAUCACCCACUUCCGCC--------------------CACA-UUGCCAUGGAAUUUCC-CGCCCGUUCCUCGCAGCAUCCUUGCAUUUUC
...(((((((....(((-------(((.............)))))).--------------------....-((((...(((((....-.....)))))..))))....))))))).... ( -21.82)
>DroSec_CAF1 77669 92 - 1
UUCAUGCAAGAAAAGCG-------GAAUUCCAUCACCCACUUCCGCC--------------------CACUUUUGCCAUGGAAUUUUC-CGCCCGUUCCUCGCAGCAUCCUUGCAUUUUC
...(((((((....(((-------(((.............)))))).--------------------.....((((...(((((....-.....)))))..))))....))))))).... ( -21.72)
>DroSim_CAF1 57169 92 - 1
UUCAUGCAAGAAAAGCG-------GAAUUCCAUCACCCACUUCCGCC--------------------CACUUUUGCCAUGGAAUUUUC-CGCCCGUUCCUCGCAGCAUCCUUGCAUUUUC
...(((((((....(((-------(((.............)))))).--------------------.....((((...(((((....-.....)))))..))))....))))))).... ( -21.72)
>DroEre_CAF1 91187 92 - 1
UUCAUGCGAGAAAAGCG-------GAAUUCCAUCACCCACUUCCGCC--------------------CACA-UUGCCAUGCAGUUUUUCCGCCCGUUCCUCUCAGCAUCCUUGGAUUUUC
.....(((.((((((((-------(((.............)))))).--------------------...(-((((...)))))))))))))....(((.............)))..... ( -16.94)
>DroYak_CAF1 84138 118 - 1
UUCAUGCAAGAAAAGCGAGACAAGGAAUUCCAUCACCCACUUCCGCCCACUUCCACCCACUUCCGUCCACA-UUGCCGUGGAGUUUUU-CGCCCGCUCCUCACAGCGUCCUUGCAUUUUC
...(((((((....((((((...((((.............)))).....................(((((.-.....)))))...)))-))).((((......))))..))))))).... ( -27.22)
>consensus
UUCAUGCAAGAAAAGCG_______GAAUUCCAUCACCCACUUCCGCC____________________CACA_UUGCCAUGGAAUUUUC_CGCCCGUUCCUCGCAGCAUCCUUGCAUUUUC
...(((((((....(((.......(((((((((............................................)))))))))...)))..(((......)))...))))))).... (-14.02 = -13.70 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:31 2006