Locus 8321

Sequence ID	3R_DroMel_CAF1
Location	22,221,909 – 22,222,029
Length	120
Max. P	0.829594

overview

Window 5

Location	22,221,909 – 22,222,000
Length	91
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	82.82
Mean single sequence MFE	-24.25
Consensus MFE	-13.42
Energy contribution	-13.56
Covariance contribution	0.14
Combinations/Pair	1.22
Mean z-score	-2.63
Structure conservation index	0.55
SVM decision value	0.10
SVM RNA-class probability	0.585738
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22221909 91 + 27905053
GAGUUUU-----------UAGCUCUCGU----CUCACAUCCACCCGAGGGAAGGCAUAAAUUGUACAACCAAUUUAAGGCCUAAAAACCACUUUUGCCUCUAUAUU
(.(((((-----------((.((((((.----............))))))..(((.(((((((......)))))))..)))))))))))................. ( -18.62)
>DroPse_CAF1 84055 95 + 1
GUGCCUU-----------UACCAUCUGGCUGGCCCUCCUUCCCCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCACUUUUGCGUUUAUAUU
..(((..-----------........))).((((..(((((((....)))))))..((((((((....)))))))).))))...((((((....)).))))..... ( -29.50)
>DroSec_CAF1 57317 91 + 1
GAGUUUU-----------UAGCUUUCGU----CUCGCAUCCACCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCCCUUUUGCCUCUAUAUU
..(((((-----------((((((((.(----((((........))))))))))).((((((((....)))))))).....))))))).................. ( -23.60)
>DroSim_CAF1 56246 91 + 1
GAAUUUU-----------UAGCUUUCGU----CUCGCAUCCACCCGAGGGAAGUUAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCACUUUUGCCUCUAUAUU
.......-----------((((((((..----((((........))))))))))))((((((((....))))))))((((..(((......))).))))....... ( -19.80)
>DroEre_CAF1 71486 102 + 1
GAGUUUUUGACUCCCUUUUAGCUUUCGU----CUCGCUUCCACCCGAGGGAAGGCACAAAUUGGACAACCAAUUUGCGGCCCAAAAACCACUUUUGCCCCUAUAUU
(.(((((((...((......((((((.(----((((........))))))))))).((((((((....)))))))).))..))))))))................. ( -27.40)
>DroYak_CAF1 64609 102 + 1
GAGUUUUUGACUCCGUUUCAGCUUUCGU----CUCGCAUCCACCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUACGGCCUAAAAACCACUUUUGCCUCUAUAUU
(.(((((((...(((.....((((((.(----((((........))))))))))).((((((((....)))))))))))..))))))))................. ( -26.60)
>consensus
GAGUUUU___________UAGCUUUCGU____CUCGCAUCCACCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCACUUUUGCCUCUAUAUU
.....................((((((.................)))))).((((.((((((((....))))))))..))))........................ (-13.42 = -13.56 +   0.14)

alignment

secondary structure

dotplot

Window 6

Location	22,221,926 – 22,222,029
Length	103
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	77.40
Mean single sequence MFE	-23.63
Consensus MFE	-12.49
Energy contribution	-12.22
Covariance contribution	-0.28
Combinations/Pair	1.21
Mean z-score	-2.05
Structure conservation index	0.53
SVM decision value	0.71
SVM RNA-class probability	0.829594
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22221926 103 + 27905053
-CUCACAUCCACCCGAGGGAAGGCAUAAAUUGUACAACCAAUUUAAGGCCUAAAAACCACUUUUGCC-UCUAUAUUCGGGAGCUCAACGC-UACUAU---------UCUUUAUUU
-..........(((((((((.(((((((((((......))))))).((........)).....))))-)))...))))))(((.....))-).....---------......... ( -22.70)
>DroVir_CAF1 90735 96 + 1
-CUGGCGUCUGCCCGGGGGAACGCAUAAAUUGGGCAACCAAUUUAAGGCCUAAAAACCACUUUUACCGUUUAUAUUCAUGCGCUCGAA-----CU-----------UUUUUGU--
-((((.(....)))))..((.((((((((((((....)))))))).((..(((((.....)))))))...........)))).))...-----..-----------.......-- ( -22.10)
>DroPse_CAF1 84075 114 + 1
GCCCUCCUUCCCCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCACUUUUGCG-UUUAUAUUCAGCCGCUCAACGUCUUCUGUUUAUUUUCUUUUUUUUUU
(((.((((((....)))))).))).((((((((....)))))))).(((.((.((((((....)).)-))).))....))).................................. ( -24.40)
>DroSec_CAF1 57334 103 + 1
-CUCGCAUCCACCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCCCUUUUGCC-UCUAUAUUCGGGAGCUCAACGG-UACUAU---------UCUUUAUUC
-..........(((((((((.((((((((((((....)))))))).((........)).....))))-)))...))))))..........-......---------......... ( -23.10)
>DroEre_CAF1 71514 103 + 1
-CUCGCUUCCACCCGAGGGAAGGCACAAAUUGGACAACCAAUUUGCGGCCCAAAAACCACUUUUGCC-CCUAUAUUCGGGAGCUCAACGC-UACUAU---------UUUUUAUUC
-...((((((.....((((..(((.((((((((....))))))))..)))(((((.....))))).)-)))......)))))).......-......---------......... ( -29.20)
>DroAna_CAF1 90489 98 + 1
-CCUACCCUCACCCGGGAGAAAGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCACUUUUGG--UUUAUAUUCAGGAGCUCAACU-----UUU---------UUUUUGCCC
-(((.(((......))).(((.((.((((((((....))))))))..))....((((((....)))--)))...)))))).........-----...---------......... ( -20.30)
>consensus
_CUCGCAUCCACCCGAGGGAAGGCAUAAAUUGGACAACCAAUUUAAGGCCUAAAAACCACUUUUGCC_UCUAUAUUCAGGAGCUCAACG__UACUAU_________UUUUUAUUC
..............(((....(((.((((((((....))))))))..)))(((((.....))))).................))).............................. (-12.49 = -12.22 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:47 2006