Locus 5589

Sequence ID	X_DroMel_CAF1
Location	14,431,785 – 14,431,877
Length	92
Max. P	0.756909

overview

Window 3

Location	14,431,785 – 14,431,877
Length	92
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	84.46
Mean single sequence MFE	-25.72
Consensus MFE	-20.20
Energy contribution	-21.15
Covariance contribution	0.95
Combinations/Pair	1.09
Mean z-score	-2.20
Structure conservation index	0.79
SVM decision value	0.49
SVM RNA-class probability	0.756909
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14431785 92 + 22224390
GUUGAAU---UUUCCGUUGGCAUAUCAAUUUAACCCAAUUGAUUUUCAAUUGA--CUCGUGACGCGCCGAG-CGUUAUGGUGCUCUGCUCUGCCAACG-
.......---....((((((((.............((((((.....))))))(--(.((((((((.....)-))))))))).........))))))))- ( -29.30)
>DroPse_CAF1 12168 85 + 1
UCUGUAUCUGUAUCUGUUGGCAUUUCAAUUUAACUCAAUUGAUUUUCAUUUGAAUCUCGUGACGCGCUAAG-CC-------------CUCUGCCAGCGC
...............(((((((............(((...(((((......)))))...))).((.....)-).-------------...))))))).. ( -17.20)
>DroSec_CAF1 11127 92 + 1
GUUGAAU---UUUCCGUUGGCAUAUCGAUUUAACCCAAUUGAUUUUCAAUUGA--CUCGUGACGCUCCGAGCCGUUAUGGUGA-CUGCUCUGCCAACG-
.......---....((((((((.............((((((.....))))))(--(.((((((((.....).)))))))))..-......))))))))- ( -25.00)
>DroSim_CAF1 22377 92 + 1
GUUGAAU---UUUCCGUUGGCAUAUCAAUUUAACCCAAUUGAUUUUCAAUUGA--CUCGUGACGCGCCGAGCCGUUAUGGUGA-CUGCUCUGCCAACG-
.......---....((((((((.............((((((.....))))))(--(.(((((((.((...)))))))))))..-......))))))))- ( -26.50)
>DroEre_CAF1 10917 91 + 1
GUCGUCU---CUUCUGUUGGCAUAUCAAUUUAACCCAAUUGAUUUUCAAUUGA--CUCGUGACGCGCCGAG-CGUUAUGGUGA-CCGCUCCGCCAACG-
.......---.....((((((..............((((((.....))))))(--(.((((((((.....)-)))))))))..-.......)))))).- ( -28.00)
>DroYak_CAF1 10994 91 + 1
GUUGCCU---UUUCUGUUGGCAUAUUAAUUUAACCCAAUUGAUUUUCAAUUGA--CUCGUGACGCGCCGAG-CGUUAUGGUGA-CUGCUCUGCCAACG-
.......---.....(((((((.............((((((.....))))))(--(.((((((((.....)-)))))))))..-......))))))).- ( -28.30)
>consensus
GUUGAAU___UUUCCGUUGGCAUAUCAAUUUAACCCAAUUGAUUUUCAAUUGA__CUCGUGACGCGCCGAG_CGUUAUGGUGA_CUGCUCUGCCAACG_
..............(((((((..............((((((.....))))))....(((((((((.....).))))))))...........))))))). (-20.20 = -21.15 +   0.95)

alignment

secondary structure

dotplot

Window 4

Location	14,431,785 – 14,431,877
Length	92
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	84.46
Mean single sequence MFE	-26.98
Consensus MFE	-19.54
Energy contribution	-20.26
Covariance contribution	0.72
Combinations/Pair	1.10
Mean z-score	-2.59
Structure conservation index	0.72
SVM decision value	0.37
SVM RNA-class probability	0.708569
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14431785 92 - 22224390
-CGUUGGCAGAGCAGAGCACCAUAACG-CUCGGCGCGUCACGAG--UCAAUUGAAAAUCAAUUGGGUUAAAUUGAUAUGCCAACGGAAA---AUUCAAC
-(((((((((.((.((((........)-))).)).)((((.((.--(((((((.....))))))).))....)))).))))))))....---....... ( -31.00)
>DroPse_CAF1 12168 85 - 1
GCGCUGGCAGAG-------------GG-CUUAGCGCGUCACGAGAUUCAAAUGAAAAUCAAUUGAGUUAAAUUGAAAUGCCAACAGAUACAGAUACAGA
((((((((....-------------.)-).))))))(((....(((((((.((.....)).)))))))...(((......)))..)))........... ( -18.60)
>DroSec_CAF1 11127 92 - 1
-CGUUGGCAGAGCAG-UCACCAUAACGGCUCGGAGCGUCACGAG--UCAAUUGAAAAUCAAUUGGGUUAAAUCGAUAUGCCAACGGAAA---AUUCAAC
-((((((((((((.(-(.......)).))))....((....((.--(((((((.....))))))).))....))...))))))))....---....... ( -27.80)
>DroSim_CAF1 22377 92 - 1
-CGUUGGCAGAGCAG-UCACCAUAACGGCUCGGCGCGUCACGAG--UCAAUUGAAAAUCAAUUGGGUUAAAUUGAUAUGCCAACGGAAA---AUUCAAC
-((((((((...(((-(.(((.....((((((........))))--))(((((.....))))).)))...))))...))))))))....---....... ( -31.50)
>DroEre_CAF1 10917 91 - 1
-CGUUGGCGGAGCGG-UCACCAUAACG-CUCGGCGCGUCACGAG--UCAAUUGAAAAUCAAUUGGGUUAAAUUGAUAUGCCAACAGAAG---AGACGAC
-.(((((((...(((-(.(((.....(-((((........))))--)((((((.....)))))))))...))))...))))))).....---....... ( -27.70)
>DroYak_CAF1 10994 91 - 1
-CGUUGGCAGAGCAG-UCACCAUAACG-CUCGGCGCGUCACGAG--UCAAUUGAAAAUCAAUUGGGUUAAAUUAAUAUGCCAACAGAAA---AGGCAAC
-.(((((((......-..(((.....(-((((........))))--)((((((.....)))))))))..........))))))).....---....... ( -25.27)
>consensus
_CGUUGGCAGAGCAG_UCACCAUAACG_CUCGGCGCGUCACGAG__UCAAUUGAAAAUCAAUUGGGUUAAAUUGAUAUGCCAACAGAAA___AUUCAAC
..(((((((.........(((.......((((........))))...((((((.....)))))))))..........)))))))............... (-19.54 = -20.26 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:40 2006