Locus 6913

Sequence ID	X_DroMel_CAF1
Location	17,298,227 – 17,298,333
Length	106
Max. P	0.955324

overview

Window 7

Location	17,298,227 – 17,298,333
Length	106
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.25
Mean single sequence MFE	-40.40
Consensus MFE	-28.79
Energy contribution	-28.93
Covariance contribution	0.14
Combinations/Pair	1.16
Mean z-score	-1.50
Structure conservation index	0.71
SVM decision value	0.78
SVM RNA-class probability	0.847969
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17298227 106 + 22224390
-----GAUGCGGAACC------UGUUG---CGCUUCCGGUGGCGGCCGUGCGCCAUUUGUCAAACGACAAAUGCUGCUUGGCCUUGUUGAAGGUGGAACGCAAUUGCGAAUUGCGUUGAU
-----(((((((....------.(((.---(((((.(((..(.(((((.(((.((((((((....)))))))).))).))))))..))).))))).)))((....))...)))))))... ( -42.80)
>DroVir_CAF1 12285 114 + 1
UGUUUGCGUUGGCGCU------AGAGGACGAAUUCGUAGAGGCAGCCGUGCGCCAUUUGUCAAACGACAAAUGCUGCUUGGCCUUGUUGAAGGUGGAACGCAAUUGGGAAUUGCGUUGGU
...(..(.(..(((((------.....(((....)))...))).((((.(((.((((((((....)))))))).))).))))...))..)..)..)((((((((.....))))))))... ( -37.90)
>DroPse_CAF1 22900 112 + 1
-----GAAGCGGGUCCUGUGCCUGUCC---CUGUGCCGGUGCCGGCCGUGCGCCAUUUGUCAAAGGACAAAUGCUGCUUGGCCUUGUUGAAGGUGGAACGCAAUUGCGAAUUGCGUUGAU
-----...(((((..(.......)..)---))))(((...((.(((((.(((.((((((((....)))))))).))).)))))..))....)))..((((((((.....))))))))... ( -41.60)
>DroWil_CAF1 7160 106 + 1
-----GAAGACGAUCC------AGAGC---CAGACCCAGUCGCAGCCGUGCGCCAUUUGUCAAAGGACAAAUGCUGCUUGGCCUUGUAAAGGGUUGAACGCAAUUGGGAAUUGCGUUGAU
-----.....((((((------.....---..(((...)))(((((((.(((.((((((((....)))))))).))).))))..)))...))))))((((((((.....))))))))... ( -36.90)
>DroMoj_CAF1 23088 110 + 1
-GUUCGGAGUGGCGCU------AGAGG---AGCUCGCCGAAGCAGCCGUGCGCCAUUUGUCAAACGACAAAUGCUGCUUGGCCUUGUUGAAGGUGGAACGCAAUUGCGAAUUGCGUUGGU
-(((((.(((.(((((------.....---)))(((((..((((((((.(((.((((((((....)))))))).))).))))..))))...)))))...)).))).)))))......... ( -39.90)
>DroAna_CAF1 16391 111 + 1
UUGUGGAGCCGGAACC------UGUGG---UGCUUCCGAUGGCGGCCGUGCGCCAUUUGUCGAAGGACAAAUGCUGCUUGGCCUUGUUGAAGGUGGAACGCAAUUGGGAAUUGCGUUGGU
.......(((...(((------(....---.(((......)))(((((.(((.((((((((....)))))))).))).))))).......))))..((((((((.....))))))))))) ( -43.30)
>consensus
_____GAAGCGGAACC______AGAGG___CGCUCCCGGUGGCAGCCGUGCGCCAUUUGUCAAACGACAAAUGCUGCUUGGCCUUGUUGAAGGUGGAACGCAAUUGCGAAUUGCGUUGAU
................................((.((...((((((((.(((.((((((((....)))))))).))).))))..))))...)).))((((((((.....))))))))... (-28.79 = -28.93 +   0.14)

alignment

secondary structure

dotplot

Window 8

Location	17,298,227 – 17,298,333
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.25
Mean single sequence MFE	-32.92
Consensus MFE	-25.92
Energy contribution	-25.67
Covariance contribution	-0.25
Combinations/Pair	1.05
Mean z-score	-2.01
Structure conservation index	0.79
SVM decision value	1.45
SVM RNA-class probability	0.955324
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17298227 106 - 22224390
AUCAACGCAAUUCGCAAUUGCGUUCCACCUUCAACAAGGCCAAGCAGCAUUUGUCGUUUGACAAAUGGCGCACGGCCGCCACCGGAAGCG---CAACA------GGUUCCGCAUC-----
...((((((((.....)))))))).............((((..((..((((((((....))))))))..))..)))).....(((((.(.---.....------).)))))....----- ( -34.60)
>DroVir_CAF1 12285 114 - 1
ACCAACGCAAUUCCCAAUUGCGUUCCACCUUCAACAAGGCCAAGCAGCAUUUGUCGUUUGACAAAUGGCGCACGGCUGCCUCUACGAAUUCGUCCUCU------AGCGCCAACGCAAACA
...((((((((.....))))))))...((((....)))).......(((((((((....)))))))(((((..((...))...(((....))).....------.)))))...))..... ( -29.10)
>DroPse_CAF1 22900 112 - 1
AUCAACGCAAUUCGCAAUUGCGUUCCACCUUCAACAAGGCCAAGCAGCAUUUGUCCUUUGACAAAUGGCGCACGGCCGGCACCGGCACAG---GGACAGGCACAGGACCCGCUUC-----
....(((((((.....)))))))(((..(((....)))(((..((..((((((((....))))))))..))...((((....))))....---.....)))...)))........----- ( -33.60)
>DroWil_CAF1 7160 106 - 1
AUCAACGCAAUUCCCAAUUGCGUUCAACCCUUUACAAGGCCAAGCAGCAUUUGUCCUUUGACAAAUGGCGCACGGCUGCGACUGGGUCUG---GCUCU------GGAUCGUCUUC-----
(((((((((((.....))))))))..........((..((((..(..((((((((....)))))))).((((....)))).....)..))---))..)------)))).......----- ( -31.80)
>DroMoj_CAF1 23088 110 - 1
ACCAACGCAAUUCGCAAUUGCGUUCCACCUUCAACAAGGCCAAGCAGCAUUUGUCGUUUGACAAAUGGCGCACGGCUGCUUCGGCGAGCU---CCUCU------AGCGCCACUCCGAAC-
...((((((((.....))))))))...((((....)))).(((((.((....)).))))).....((((((..((((((....)).))))---.....------.))))))........- ( -32.80)
>DroAna_CAF1 16391 111 - 1
ACCAACGCAAUUCCCAAUUGCGUUCCACCUUCAACAAGGCCAAGCAGCAUUUGUCCUUCGACAAAUGGCGCACGGCCGCCAUCGGAAGCA---CCACA------GGUUCCGGCUCCACAA
...((((((((.....)))))))).............((((..((..((((((((....))))))))..))..))))(((...((((.(.---.....------).)))))))....... ( -35.60)
>consensus
ACCAACGCAAUUCCCAAUUGCGUUCCACCUUCAACAAGGCCAAGCAGCAUUUGUCCUUUGACAAAUGGCGCACGGCCGCCACCGGGAGCG___CCACA______GGAUCCGCUUC_____
...((((((((.....)))))))).............((((..((..((((((((....))))))))..))..))))........................................... (-25.92 = -25.67 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:49 2006