Locus 7109

Sequence ID	2L_DroMel_CAF1
Location	19,935,882 – 19,936,000
Length	118
Max. P	0.997949

overview

Window 9

Location	19,935,882 – 19,935,974
Length	92
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	87.24
Mean single sequence MFE	-37.44
Consensus MFE	-30.16
Energy contribution	-30.68
Covariance contribution	0.52
Combinations/Pair	1.09
Mean z-score	-3.16
Structure conservation index	0.81
SVM decision value	2.97
SVM RNA-class probability	0.997949
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19935882 92 + 22407834
UGGUUUUCACGGUGAUAGGGCUGCGCCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU-----UCCACCGGAGUUCCAC
.((((..((.(.(((((((((.(((((.(((........))))))..)).))))))))).)))..))))(((((((-----((....))))))))). ( -42.10)
>DroSec_CAF1 111769 92 + 1
UGGUUUUCACGGCGAUAGGGCUGCGUCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU-----UCCACUGGAGUUCCAC
.((((..((..((((((((((.((..(((((........)))))...)).)))))))).))))..))))(((((((-----((....))))))))). ( -39.10)
>DroSim_CAF1 123397 92 + 1
UGGUUUUCACGGCGAUAGGGCUGCGUCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU-----UCCACUGGAGUUCCAC
.((((..((..((((((((((.((..(((((........)))))...)).)))))))).))))..))))(((((((-----((....))))))))). ( -39.10)
>DroEre_CAF1 117403 93 + 1
UGGUUUCCACGGCGAUAGGGCUGCGUCUGAAUUCAAAUUUUCGGUCAGCUGUCCUGUCAGCUGGGGUUCUGCAACUAGAGUUCC----GAGUUCCAC
(((.(((...(((((((((((.((..(((((........)))))...)).)))))))).)))((..(((((....)))))..))----)))..))). ( -35.30)
>DroYak_CAF1 117863 86 + 1
UGGUCUUCACGGCGAUAUGGCUGCGCCUGAAUUCAAAUUUUCGGUCAGCUGUCCUGUCAGCUGGGGAUCUGGAACUGGAG-----------UUCCAC
.(((((((((((((..(((((((.(((.(((........)))))))))))))..)))).).))))))))((((((....)-----------))))). ( -31.60)
>consensus
UGGUUUUCACGGCGAUAGGGCUGCGUCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU_____UCCAC_GGAGUUCCAC
.((((((((..((((((((((.((..(((((........)))))...)).)))))))).))))))))))(((((((.............))))))). (-30.16 = -30.68 +   0.52)

alignment

secondary structure

dotplot

Window 0

Location	19,935,900 – 19,936,000
Length	100
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	89.01
Mean single sequence MFE	-35.62
Consensus MFE	-27.68
Energy contribution	-28.16
Covariance contribution	0.48
Combinations/Pair	1.10
Mean z-score	-2.10
Structure conservation index	0.78
SVM decision value	1.12
SVM RNA-class probability	0.917794
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19935900 100 + 22407834
GGCUGCGCCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU-----UCCACCGGAGUUCCACUCGAGUUGUCCGUAAUUACAACUCGG
(((((.(((.(((........)))))))))))(((((........))))).(((((((-----((....)))))))))..((((((((........)))))))). ( -41.30)
>DroSec_CAF1 111787 100 + 1
GGCUGCGUCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU-----UCCACUGGAGUUCCACUCGAGUUGUCCGUAAUUACAACUCGG
(((((.(.(((((........)))))))))))(((((........))))).(((((((-----((....)))))))))..((((((((........)))))))). ( -39.00)
>DroSim_CAF1 123415 100 + 1
GGCUGCGUCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU-----UCCACUGGAGUUCCACUCGAGUUGUCCGUAAUUACAACUCGG
(((((.(.(((((........)))))))))))(((((........))))).(((((((-----((....)))))))))..((((((((........)))))))). ( -39.00)
>DroEre_CAF1 117421 101 + 1
GGCUGCGUCUGAAUUCAAAUUUUCGGUCAGCUGUCCUGUCAGCUGGGGUUCUGCAACUAGAGUUCC----GAGUUCCACUCGAGUGGUCCGUAAUUACAACUCGG
((.(((..(((((........)))))(((((((......)))))))......))).))......((----(((((((((....))))...((....))))))))) ( -28.90)
>DroYak_CAF1 117881 94 + 1
GGCUGCGCCUGAAUUCAAAUUUUCGGUCAGCUGUCCUGUCAGCUGGGGAUCUGGAACUGGAG-----------UUCCACUCGAGCUGUCCGUAAUUACAACUCGG
(((((.(((.(((........))))))))))).....(.(((((.(((...((((((....)-----------)))))))).))))).)................ ( -29.90)
>consensus
GGCUGCGUCUGAAUUCAAAUUUUCGGCCAGCCGUCCUGUCAGCUGGGGAUCUGGAACU_____UCCAC_GGAGUUCCACUCGAGUUGUCCGUAAUUACAACUCGG
(((((.(((.(((........)))))))))))(((((........))))).(((((((.............)))))))..((((((((........)))))))). (-27.68 = -28.16 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:42 2006