Locus 4794

Sequence ID	3R_DroMel_CAF1
Location	12,527,141 – 12,527,250
Length	109
Max. P	0.985274

overview

Window 6

Location	12,527,141 – 12,527,250
Length	109
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	76.81
Mean single sequence MFE	-30.94
Consensus MFE	-15.46
Energy contribution	-16.68
Covariance contribution	1.22
Combinations/Pair	1.13
Mean z-score	-2.08
Structure conservation index	0.50
SVM decision value	0.68
SVM RNA-class probability	0.822084
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12527141 109 + 27905053
GAAUUCGUGCCGCCUGAGAAUUUACAACGAUUUCCCGCCGAAAUUCGCAGAGAAAU---AUCGUGUCCCGCGCCACAUUUCUCAUCC--UCCUGC----GCGGGCACGAAAAUCUUGU
...(((((((((((.(((.........(((((((.....)))).)))..(((((((---...(((.....)))...)))))))...)--))..).----)).))))))))........ ( -30.80)
>DroVir_CAF1 8626 110 + 1
CAGUUCGUGCCGCCUG-CAAUUUACGACCAUUUCCCGCUGAAAU--GCACAGAAAU---AACGCGGCAUGAACAACAUUUCUCAUUC--GGUUGGCGUUUUCGGCACGAAAUUCUUGU
..(((((((((((.((-((.((((((.........)).)))).)--))).(....)---...)))))))))))...........(((--((((((.....))))).))))........ ( -30.70)
>DroPse_CAF1 15469 113 + 1
GAAUUCGUGCUGGCCGAGAAUUUACAACGUUUUCCCGCCGAAAUCCGCAGAGAAAUACUAUCGUGGUAUG-GCCACAUUUCUCAUUUGGCCCGAC----UCGAGCACGAAAAUCUUGU
...(((((((((((((((..................((.(....).)).(((((((......((((....-.))))))))))).)))))))....----...))))))))........ ( -32.81)
>DroEre_CAF1 13793 109 + 1
GAAUUCGUGCCGCCUGAGAAUUUACAACGAUUUCCCACCGAAAUCCGCCGAGAAAU---AUCGUGUCCCGCGCCACAUUUCUCAUCC--UCCUGC----GCCGGCACGAAAAUCUUGU
...(((((((((((.(((..........((((((.....))))))....(((((((---...(((.....)))...)))))))...)--))..).----).)))))))))........ ( -32.50)
>DroAna_CAF1 16006 99 + 1
GAAUUCGUGCCGCCAGAGAAUUUACAACGAUUUCCCGCCGAAAUCCC------AAC---UUCGCG----GCGAAACAUUUCUCAUUC--UCCUUA----GCAAGCACGAAAAUCUUGU
...(((((((.((..((((((.........((((((((.(((.....------...---))))))----).))))........))))--))....----))..)))))))........ ( -25.63)
>DroPer_CAF1 19434 112 + 1
GAAUUCGUGCUGGCCGAGAAUUUACAACGUUUUCCCGCCGAAAUCCGCAGAGAAAU---AUCGUGGUAUG-GCAACAUUUCUCAUUUGGCCCGAU--UUUCGAGCACGAAAAUCUUGU
...((((((((((((((((((.......))))))..((((....((((.((.....---.))))))..))-))..............))))((..--...))))))))))........ ( -33.20)
>consensus
GAAUUCGUGCCGCCUGAGAAUUUACAACGAUUUCCCGCCGAAAUCCGCAGAGAAAU___AUCGUGGCAUGCGCAACAUUUCUCAUUC__UCCUGC____GCGAGCACGAAAAUCUUGU
...((((((((.................((((((.....))))))....(((((((.....((.....))......)))))))...................))))))))........ (-15.46 = -16.68 +   1.22)

alignment

secondary structure

dotplot

Window 7

Location	12,527,141 – 12,527,250
Length	109
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	76.81
Mean single sequence MFE	-38.25
Consensus MFE	-20.09
Energy contribution	-20.73
Covariance contribution	0.64
Combinations/Pair	1.19
Mean z-score	-2.72
Structure conservation index	0.53
SVM decision value	2.00
SVM RNA-class probability	0.985274
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12527141 109 - 27905053
ACAAGAUUUUCGUGCCCGC----GCAGGA--GGAUGAGAAAUGUGGCGCGGGACACGAU---AUUUCUCUGCGAAUUUCGGCGGGAAAUCGUUGUAAAUUCUCAGGCGGCACGAAUUC
...(((...((((((((((----((....--(.((.....)).).))))))).))))).---...)))(((.((((((((((((....)))))).)))))).)))............. ( -38.10)
>DroVir_CAF1 8626 110 - 1
ACAAGAAUUUCGUGCCGAAAACGCCAACC--GAAUGAGAAAUGUUGUUCAUGCCGCGUU---AUUUCUGUGC--AUUUCAGCGGGAAAUGGUCGUAAAUUG-CAGGCGGCACGAACUG
........(((((((((....)(((....--(((..(......)..))).(((.(((((---((((((.(((--......))))))))))).))).....)-)))))))))))))... ( -31.90)
>DroPse_CAF1 15469 113 - 1
ACAAGAUUUUCGUGCUCGA----GUCGGGCCAAAUGAGAAAUGUGGC-CAUACCACGAUAGUAUUUCUCUGCGGAUUUCGGCGGGAAAACGUUGUAAAUUCUCGGCCAGCACGAAUUC
........((((((((.(.----(((((((((.((.....)).))))-).....(((((.((.((((.((((.(....).))))))))))))))).......)))))))))))))... ( -38.00)
>DroEre_CAF1 13793 109 - 1
ACAAGAUUUUCGUGCCGGC----GCAGGA--GGAUGAGAAAUGUGGCGCGGGACACGAU---AUUUCUCGGCGGAUUUCGGUGGGAAAUCGUUGUAAAUUCUCAGGCGGCACGAAUUC
........(((((((((.(----....((--(((((((((((((.(.(.....).).))---)))))))((((.(((((.....)))))))))....)))))).).)))))))))... ( -41.30)
>DroAna_CAF1 16006 99 - 1
ACAAGAUUUUCGUGCUUGC----UAAGGA--GAAUGAGAAAUGUUUCGC----CGCGAA---GUU------GGGAUUUCGGCGGGAAAUCGUUGUAAAUUCUCUGGCGGCACGAAUUC
........((((((((.((----(..(((--((((....((((((((.(----((((((---((.------...))))).)))))))).))))....))))))))))))))))))... ( -38.30)
>DroPer_CAF1 19434 112 - 1
ACAAGAUUUUCGUGCUCGAAA--AUCGGGCCAAAUGAGAAAUGUUGC-CAUACCACGAU---AUUUCUCUGCGGAUUUCGGCGGGAAAACGUUGUAAAUUCUCGGCCAGCACGAAUUC
........((((((((((...--..))((((....(((((((((((.-.......))))---))))))).(.(((((((((((......))))).)))))).)))))))))))))... ( -41.90)
>consensus
ACAAGAUUUUCGUGCCCGA____GCAGGA__GAAUGAGAAAUGUGGCGCAUGCCACGAU___AUUUCUCUGCGGAUUUCGGCGGGAAAUCGUUGUAAAUUCUCAGGCGGCACGAAUUC
........((((((((...................(((((((......(.......).....)))))))...(((((((((((......))))).))))))......))))))))... (-20.09 = -20.73 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:06 2006