Locus 980

Sequence ID 2L_DroMel_CAF1
Location 2,823,628 – 2,823,728
Length 100
Max. P 0.701625
window1575 window1576

overview

Window 5

Location 2,823,628 – 2,823,728
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 91.20
Mean single sequence MFE -28.36
Consensus MFE -21.84
Energy contribution -22.88
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -1.70
Structure conservation index 0.77
SVM decision value 0.35
SVM RNA-class probability 0.701625
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2823628 100 + 22407834
GAUAGUUUUGAACGCAGUACGCCUGAUGGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCGCCAUUAAGCAUUGUUAU
((..(...(((((((((((((((.....)))))).))))..((((((....))))))......).))))...)..)).....((......))........ ( -28.40)
>DroSec_CAF1 7315 100 + 1
GAUAGUUUUGAACGCAGUACGCCUGAUCGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCCCCAUUGAACAUGGUUAU
((..(...(((((((((((((((.....)))))).))))..((((((....))))))......).))))...)..))......((((.....)))).... ( -28.90)
>DroSim_CAF1 9514 100 + 1
GAUAGUUUUGAACGCAGUACGCCUGAUCGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCCCCAUUGAACAUGGUUAU
((..(...(((((((((((((((.....)))))).))))..((((((....))))))......).))))...)..))......((((.....)))).... ( -28.90)
>DroEre_CAF1 7196 100 + 1
GAUAGUUUUGAACGCAGUAGGCCUGCUGGGCGUAUCUAUCGGUCCUGGUCACAGGACCUCCCAGCUGCAUAUCCUUCCUCUCACCAUUAAGCAUGGUUAU
(((((...((..(((((.....)))).)..))...)))))(((((((....)))))))..((((((.......................))).))).... ( -30.00)
>DroYak_CAF1 7246 100 + 1
GAUAGUUUUGAACGCAGAAGGCCUGAUGGGCGUAUCUAUCUGUCCUGGUCACAGGACCACCCAGCUGCAUAUCCUUUCUCUCACCAUUUAACAUGGUUAU
((((((.....))((((..((...((((((....)))))).((((((....))))))...))..)))).)))).........(((((.....)))))... ( -25.60)
>consensus
GAUAGUUUUGAACGCAGUACGCCUGAUGGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCACCAUUAAACAUGGUUAU
((..(...((((.((.(((((((.....)))))))......((((((....))))))......))))))...)..))......((((.....)))).... (-21.84 = -22.88 +   1.04) 

alignment

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secondary structure

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dotplot

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Window 6

Location 2,823,628 – 2,823,728
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 91.20
Mean single sequence MFE -29.38
Consensus MFE -22.34
Energy contribution -22.90
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.76
SVM decision value -0.02
SVM RNA-class probability 0.520964
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2823628 100 - 22407834
AUAACAAUGCUUAAUGGCGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCCAUCAGGCGUACUGCGUUCAAAACUAUC
....(...((((.(((.((......))..))).))))..)(((((((((....)))))).(.(((.((((((.....)))))))))).)))......... ( -26.50)
>DroSec_CAF1 7315 100 - 1
AUAACCAUGUUCAAUGGGGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCGAUCAGGCGUACUGCGUUCAAAACUAUC
....((((.....))))(((...(.(((........(((....((((((....))))))...))).((((((.....)))))))))).)))......... ( -29.50)
>DroSim_CAF1 9514 100 - 1
AUAACCAUGUUCAAUGGGGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCGAUCAGGCGUACUGCGUUCAAAACUAUC
....((((.....))))(((...(.(((........(((....((((((....))))))...))).((((((.....)))))))))).)))......... ( -29.50)
>DroEre_CAF1 7196 100 - 1
AUAACCAUGCUUAAUGGUGAGAGGAAGGAUAUGCAGCUGGGAGGUCCUGUGACCAGGACCGAUAGAUACGCCCAGCAGGCCUACUGCGUUCAAAACUAUC
...(((((.....)))))((.((....((.((((.((((((.(((((((....)))))))..........))))))((.....))))))))....)).)) ( -33.40)
>DroYak_CAF1 7246 100 - 1
AUAACCAUGUUAAAUGGUGAGAGAAAGGAUAUGCAGCUGGGUGGUCCUGUGACCAGGACAGAUAGAUACGCCCAUCAGGCCUUCUGCGUUCAAAACUAUC
...(((((.....))))).........((.((((((..((((.((((((....)))))).(((.(......).)))..)))).))))))))......... ( -28.00)
>consensus
AUAACCAUGUUCAAUGGGGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCCAUCAGGCGUACUGCGUUCAAAACUAUC
....((((.....)))).........((((.............((((((....)))))).(.(((.((((((.....))))))))))))))......... (-22.34 = -22.90 +   0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:15 2006