Locus 6383

Sequence ID	3L_DroMel_CAF1
Location	17,092,154 – 17,092,248
Length	94
Max. P	0.879264

overview

Window 3

Location	17,092,154 – 17,092,248
Length	94
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	83.20
Mean single sequence MFE	-32.12
Consensus MFE	-24.79
Energy contribution	-24.23
Covariance contribution	-0.55
Combinations/Pair	1.19
Mean z-score	-2.64
Structure conservation index	0.77
SVM decision value	0.91
SVM RNA-class probability	0.879264
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17092154 94 + 23771897
-GCUCUU-UCCCCCUUGGCGAUUUUCACCAUCGCUUUUCCCAGCUGCCCAAUGAGGCGGCAGGCAAAAGCCAA-AGGGGAUUAGUUGUAAUCAAUAA
-(((...-(((((.((((((((.......)))..((((.((.((((((......)))))).)).)))))))))-.)))))..)))............ ( -32.50)
>DroPse_CAF1 55830 87 + 1
GGCCCUCCCCCU-----GCGGGU-----UGCUGCUCUGCUCUGCUGCCCAAUGAGGCGGCAGGCGAAAGCCAAAAGGGGAUUAGUUGUAAUCAAUAA
.......(((((-----((((((-----....)).))))..(((((((......)))))))(((....)))...)))))....((((....)))).. ( -34.90)
>DroSec_CAF1 50304 95 + 1
-GCUCUUCUCCCGCUUGGCGAUUUUCCCCACCGCUUUUCCCAGCUGCCCAAUGAGGCGGCAGGCAAAAGCCAA-AGGGGAUUAGUUGUAAUCAAUAA
-................((((((.(((((...((((((.((.((((((......)))))).)).))))))...-.)))))..))))))......... ( -33.20)
>DroSim_CAF1 53234 95 + 1
-GCUCUUCUCCCGCUUGGCGAUUUUCCCCACCGCUUUUCCCAGCUGCCCAAUGAGGCGGCAGGCAAAAGCCAA-AGGGGAUUAGUUGUAAUCAAUAA
-................((((((.(((((...((((((.((.((((((......)))))).)).))))))...-.)))))..))))))......... ( -33.20)
>DroEre_CAF1 50346 89 + 1
-GCUCCU-GCUCU---UUCGAUUUUCCC--UCGGCUUUCCCAGCUGCCCAAUGAGGCGGCAGGCAAAAGCCAA-AGGGGAUUAGUUGUAAUCAAUAA
-((....-))...---..(((((.((((--(.((((((.((.((((((......)))))).))..))))))..-.)))))..))))).......... ( -30.40)
>DroYak_CAF1 53131 90 + 1
-GCACCUUUCCCU---UUCGAUUUUCCC--UCGGUUUUCCCAGCUGCCCAAUGAGGCGGCAGGCAAGAGCCAA-AGGGGAUUAGUUGUAAUCAAUAA
-(((.((.(((((---((.((.......--))((((((.((.((((((......)))))).))..)))))).)-))))))..)).)))......... ( -28.50)
>consensus
_GCUCUUCUCCCG___GGCGAUUUUCCCCACCGCUUUUCCCAGCUGCCCAAUGAGGCGGCAGGCAAAAGCCAA_AGGGGAUUAGUUGUAAUCAAUAA
.................((((.........))))....(((.((((((......)))))).(((....)))....)))(((((....)))))..... (-24.79 = -24.23 +  -0.55)

alignment

secondary structure

dotplot

Window 4

Location	17,092,154 – 17,092,248
Length	94
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	83.20
Mean single sequence MFE	-34.43
Consensus MFE	-18.65
Energy contribution	-19.65
Covariance contribution	1.00
Combinations/Pair	1.13
Mean z-score	-2.69
Structure conservation index	0.54
SVM decision value	-0.05
SVM RNA-class probability	0.508852
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17092154 94 - 23771897
UUAUUGAUUACAACUAAUCCCCU-UUGGCUUUUGCCUGCCGCCUCAUUGGGCAGCUGGGAAAAGCGAUGGUGAAAAUCGCCAAGGGGGA-AAGAGC-
.................((((((-((.((((((.((.((.((((....)))).)).)).))))))...((((.....))))))))))))-......- ( -37.80)
>DroPse_CAF1 55830 87 - 1
UUAUUGAUUACAACUAAUCCCCUUUUGGCUUUCGCCUGCCGCCUCAUUGGGCAGCAGAGCAGAGCAGCA-----ACCCGC-----AGGGGGAGGGCC
.................(((((((...(((((.((((((.((((....)))).)))).))))))).((.-----....))-----)))))))..... ( -32.80)
>DroSec_CAF1 50304 95 - 1
UUAUUGAUUACAACUAAUCCCCU-UUGGCUUUUGCCUGCCGCCUCAUUGGGCAGCUGGGAAAAGCGGUGGGGAAAAUCGCCAAGCGGGAGAAGAGC-
.............((..((((.(-(((((((((.((..((((((....)))).(((......)))))..)).))))..)))))).))))..))...- ( -37.80)
>DroSim_CAF1 53234 95 - 1
UUAUUGAUUACAACUAAUCCCCU-UUGGCUUUUGCCUGCCGCCUCAUUGGGCAGCUGGGAAAAGCGGUGGGGAAAAUCGCCAAGCGGGAGAAGAGC-
.............((..((((.(-(((((((((.((..((((((....)))).(((......)))))..)).))))..)))))).))))..))...- ( -37.80)
>DroEre_CAF1 50346 89 - 1
UUAUUGAUUACAACUAAUCCCCU-UUGGCUUUUGCCUGCCGCCUCAUUGGGCAGCUGGGAAAGCCGA--GGGAAAAUCGAA---AGAGC-AGGAGC-
.................((((((-(((((((((.((.((.((((....)))).)).)))))))))))--)))....((...---.))..-.)))..- ( -34.10)
>DroYak_CAF1 53131 90 - 1
UUAUUGAUUACAACUAAUCCCCU-UUGGCUCUUGCCUGCCGCCUCAUUGGGCAGCUGGGAAAACCGA--GGGAAAAUCGAA---AGGGAAAGGUGC-
............(((..((((((-((((...((.((.((.((((....)))).)).)).))..))))--))).....(...---.))))..)))..- ( -26.30)
>consensus
UUAUUGAUUACAACUAAUCCCCU_UUGGCUUUUGCCUGCCGCCUCAUUGGGCAGCUGGGAAAAGCGAUGGGGAAAAUCGCC___AGGGAGAAGAGC_
.....(((((....)))))(((...(.((((((.((.((.((((....)))).)).)).)))))).)..)))......................... (-18.65 = -19.65 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:02 2006