Locus 574

Sequence ID 3L_DroMel_CAF1
Location 1,649,399 – 1,649,519
Length 120
Max. P 0.570806
window877 window878

overview

Window 7

Location 1,649,399 – 1,649,519
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.67
Mean single sequence MFE -35.85
Consensus MFE -21.36
Energy contribution -22.50
Covariance contribution 1.14
Combinations/Pair 1.39
Mean z-score -2.24
Structure conservation index 0.60
SVM decision value 0.07
SVM RNA-class probability 0.570806
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1649399 120 + 23771897
CAAUGGCAUUCCUGAAGUGGACCUGGGCAUUGUGGCCAAGAUCCGCAACAUAGAGGCCACCGAGGAAGCCAAGCAGAAGCUGCUGCAGGACGCCAAGAACAAGAAGGACGGACCCUCGCA
...((((.(((((...((((.(((..(..((((((.......))))))..)..)))))))..)))))))))(((((...)))))(((((.((((...........)).))...))).)). ( -39.30)
>DroVir_CAF1 13191 120 + 1
AAAUGGCAUACCCGAAGUGGAUCUGGGCAUUCAUGCCAAGAUUCACAACAUCGAGGCCACGGAGGAUGCUAAGCAAAAGCUGCUGCAGGAUGCCAAGAACAAAAAGGAUGGACCCUCACA
...((((((.(((((.((((((((.((((....)))).))))))))....)))...((.....)).(((..(((....)))...))))))))))).........(((......))).... ( -36.00)
>DroPse_CAF1 12609 120 + 1
AAACGGCAUUCCUGAGGUAGACCUGGGCAUUCAGGCCAAGAUCUGCAAUAUAGAGGCCACGGAGGAUGCAAAACAGAAACUGCUGCAGGAUGCAAAGAACAAGAAGGACGGACCGUCACA
.....((((.((((.(((((..(((.((((((.((((....((((.....)))))))).....))))))....)))...))))).)))))))).............((((...))))... ( -36.10)
>DroGri_CAF1 13420 120 + 1
AAAUGGCAUACCAGAAGUAGAUCUGGGCAUCCAUGCUAAGAUACGUAACAUUGAGGCAACGGAGGAUGCCAAGCAGAAGCUGCUCCAGGAUGCCAAGAACAAGAAGGAUGGACCCUCGCA
...((((((.((.(.(((((.(((((((((((.(((........))).......(....)...)))))))...))))..))))).).)))))))).......((.((......))))... ( -37.00)
>DroWil_CAF1 13760 120 + 1
UAAUGGUAUUCCAGAAGUUGAUUUGGGCAUCCAGGCCAAAAUACGUAAUAUUGAGGCCACCGAGGAUGCCAAGCAAAAACUAUUGCAAGAUGCCAAGAACAAAAAGGAUGGACCAUCUCA
...(((((((.(((.((((......(((((((.((((..((((.....))))..)))).....))))))).......)))).)))...)))))))..........(((((...))))).. ( -33.22)
>DroMoj_CAF1 13446 120 + 1
CAAUGGCAUACCCGAAGUGGACCUUGGCAUCCAGGCCAAGAUACACAACAUUGAAGCAACGGAAGAAGCUAAGCAAAAGCUGCUACAGGAUGCUAAGAACAAAAAGGAUGGGCCCUCACA
....(((.((.((....((...((((((((((......................(((..(....)..))).((((.....))))...))))))))))..))....)).)).)))...... ( -33.50)
>consensus
AAAUGGCAUACCAGAAGUGGACCUGGGCAUCCAGGCCAAGAUACGCAACAUUGAGGCCACGGAGGAUGCCAAGCAAAAGCUGCUGCAGGAUGCCAAGAACAAAAAGGAUGGACCCUCACA
...((((((.((.(.(((((..((((((((((.((((..(((.......)))..)))).....)))))))...)))...))))).).))))))))..........((.....))...... (-21.36 = -22.50 +   1.14) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 1,649,399 – 1,649,519
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.67
Mean single sequence MFE -36.99
Consensus MFE -23.44
Energy contribution -23.14
Covariance contribution -0.30
Combinations/Pair 1.35
Mean z-score -1.95
Structure conservation index 0.63
SVM decision value 0.06
SVM RNA-class probability 0.563485
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1649399 120 - 23771897
UGCGAGGGUCCGUCCUUCUUGUUCUUGGCGUCCUGCAGCAGCUUCUGCUUGGCUUCCUCGGUGGCCUCUAUGUUGCGGAUCUUGGCCACAAUGCCCAGGUCCACUUCAGGAAUGCCAUUG
...(((((.....))))).......(((((((((((((((((....))..((((.(....).))))....))))))((((((.(((......))).)))))).....))).))))))... ( -47.10)
>DroVir_CAF1 13191 120 - 1
UGUGAGGGUCCAUCCUUUUUGUUCUUGGCAUCCUGCAGCAGCUUUUGCUUAGCAUCCUCCGUGGCCUCGAUGUUGUGAAUCUUGGCAUGAAUGCCCAGAUCCACUUCGGGUAUGCCAUUU
(((.((((((((.............))).))))))))(((((....)))..)).......((((((((((....(((.((((.((((....)))).)))).))).)))))...))))).. ( -36.52)
>DroPse_CAF1 12609 120 - 1
UGUGACGGUCCGUCCUUCUUGUUCUUUGCAUCCUGCAGCAGUUUCUGUUUUGCAUCCUCCGUGGCCUCUAUAUUGCAGAUCUUGGCCUGAAUGCCCAGGUCUACCUCAGGAAUGCCGUUU
...((((((...((((................(((((((((........))))..((.....)).........))))).....((((((......))))))......))))..)))))). ( -31.50)
>DroGri_CAF1 13420 120 - 1
UGCGAGGGUCCAUCCUUCUUGUUCUUGGCAUCCUGGAGCAGCUUCUGCUUGGCAUCCUCCGUUGCCUCAAUGUUACGUAUCUUAGCAUGGAUGCCCAGAUCUACUUCUGGUAUGCCAUUU
...(((((.....))))).......((((((((.((((.((..((((...(((((((..(((((...)))))....((......))..))))))))))).)).)))).)).))))))... ( -39.60)
>DroWil_CAF1 13760 120 - 1
UGAGAUGGUCCAUCCUUUUUGUUCUUGGCAUCUUGCAAUAGUUUUUGCUUGGCAUCCUCGGUGGCCUCAAUAUUACGUAUUUUGGCCUGGAUGCCCAAAUCAACUUCUGGAAUACCAUUA
...((((((...(((.....(((.(((.......((((......))))..(((((((.....((((..(((((...)))))..)))).))))))))))...)))....)))..)))))). ( -34.40)
>DroMoj_CAF1 13446 120 - 1
UGUGAGGGCCCAUCCUUUUUGUUCUUAGCAUCCUGUAGCAGCUUUUGCUUAGCUUCUUCCGUUGCUUCAAUGUUGUGUAUCUUGGCCUGGAUGCCAAGGUCCACUUCGGGUAUGCCAUUG
......(((..((((...........(((((..((.((((((....((...)).......)))))).)))))))(((.((((((((......)))))))).)))...))))..))).... ( -32.80)
>consensus
UGUGAGGGUCCAUCCUUCUUGUUCUUGGCAUCCUGCAGCAGCUUCUGCUUGGCAUCCUCCGUGGCCUCAAUGUUGCGUAUCUUGGCCUGAAUGCCCAGAUCCACUUCAGGAAUGCCAUUU
...(((((.....))))).......((((((((((..(((((........(((..(....)..))).....)))))..((((.(((......))).))))......)))).))))))... (-23.44 = -23.14 +  -0.30) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:41 2006