Locus 8418

Sequence ID 3R_DroMel_CAF1
Location 22,435,915 – 22,436,016
Length 101
Max. P 0.942313
window13555 window13556

overview

Window 5

Location 22,435,915 – 22,436,016
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.24
Mean single sequence MFE -33.59
Consensus MFE -17.80
Energy contribution -17.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.94
Structure conservation index 0.53
SVM decision value 1.23
SVM RNA-class probability 0.933621
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22435915 101 + 27905053
CGGCCGCCGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUU-UGCCGUAAACCA-GCAAAUGCGA---------------CG--GCAACAAAUAAGUUGUCAGCGGA
...((((.(((((((((.(((((((.(((((...))))).))))))).)))).(-((((((......-((....)).)---------------))--))))........))))).)))). ( -36.30)
>DroVir_CAF1 132509 95 + 1
CGG---CCGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUU-UUAC--AGCGCG-GC-GACGCGC---------------UG--CCAACAAAUAAGUUGUCAGAGAA
.((---(.(((((((((.(((((((.(((((...))))).))))))).))))))-...(--((((((-..-..)))))---------------))--...........))))))...... ( -32.80)
>DroGri_CAF1 110574 101 + 1
CGG---CCGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUU-UUAC--UGCGGU-GC-GCUGCGACGCGA---------GUG--GCAGCAAGUAAGUUGUCAGAGGA
...---..(((((((((.(((((((.(((((...))))).))))))).)))).(-((((--(((...-))-(((((.((....---------)).--))))).)))))))))))...... ( -35.40)
>DroWil_CAF1 73644 102 + 1
UGG---CCGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUUUUGCCGUAAAGCAGGCAAAUGCGA---------------CGAGGCAACAAAUAAGUUGUCAGCGAA
..(---((((....))).......(((((((((((((((.....((((((...((((((........)))))))))))---------------)...))))))))...)))))))))... ( -31.50)
>DroMoj_CAF1 161120 110 + 1
CGG---CCGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUU-UUAC--AACGCU-GC-GACGCGGCGCAGCGCUACACGACG--CUAACAAAUAAGUUGUCAGAGAA
...---..(((((.(((.(((((((.(((((...))))).)))))))(((....-....--..((((-((-(......)))))))........))--).......))).)))))...... ( -31.27)
>DroAna_CAF1 75423 98 + 1
CGGC---CGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUU-UGCCGUAAACCG-GCAAAUGCGA---------------CG--GCAACAAAUAAGUUGUCAGCGGA
...(---((.(.(((....)))..(((((((((((((((.....((((((..((-(((((.....))-))))))))))---------------).--))))))))...))))))))))). ( -34.30)
>consensus
CGG___CCGACAAGUUGAAACUAAUGACAAUUUUGUUGUAAUUAGUUGCGGCUU_UGAC__AAAGCA_GC_AAUGCGA_______________CG__GCAACAAAUAAGUUGUCAGAGAA
........(((((((((.(((((((.(((((...))))).))))))).))))................((....)).................................)))))...... (-17.80 = -17.80 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 22,435,915 – 22,436,016
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.24
Mean single sequence MFE -31.75
Consensus MFE -13.17
Energy contribution -13.33
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -3.59
Structure conservation index 0.41
SVM decision value 1.33
SVM RNA-class probability 0.942313
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22435915 101 - 27905053
UCCGCUGACAACUUAUUUGUUGC--CG---------------UCGCAUUUGC-UGGUUUACGGCA-AAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCGGCGGCCG
.((((((((((.......((((.--.(---------------(.((.(((((-((.....)))))-)))).))(((((((.((((.....)))).))))))).))))))))))))))... ( -35.81)
>DroVir_CAF1 132509 95 - 1
UUCUCUGACAACUUAUUUGUUGG--CA---------------GCGCGUC-GC-CGCGCU--GUAA-AAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCGG---CCG
....(((((((.......(((.(--((---------------(((((..-..-))))))--))..-.))).(.(((((((.((((.....)))).))))))).)...)))))))---... ( -30.20)
>DroGri_CAF1 110574 101 - 1
UCCUCUGACAACUUACUUGCUGC--CAC---------UCGCGUCGCAGC-GC-ACCGCA--GUAA-AAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCGG---CCG
....(((((((.....(((((((--...---------.(((......))-).-...)))--))))-.....(.(((((((.((((.....)))).))))))).)...)))))))---... ( -27.20)
>DroWil_CAF1 73644 102 - 1
UUCGCUGACAACUUAUUUGUUGCCUCG---------------UCGCAUUUGCCUGCUUUACGGCAAAAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCGG---CCA
...((((((((.......((((....(---------------(.((.((((((........)))))).)).))(((((((.((((.....)))).))))))).)))))))))))---).. ( -30.11)
>DroMoj_CAF1 161120 110 - 1
UUCUCUGACAACUUAUUUGUUAG--CGUCGUGUAGCGCUGCGCCGCGUC-GC-AGCGUU--GUAA-AAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCGG---CCG
....(((((((...........(--((.(.((((((((((((......)-))-))))))--))).-..).)))(((((((.((((.....)))).))))))).....)))))))---... ( -34.30)
>DroAna_CAF1 75423 98 - 1
UCCGCUGACAACUUAUUUGUUGC--CG---------------UCGCAUUUGC-CGGUUUACGGCA-AAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCG---GCCG
...((((((((.......((((.--.(---------------(.((.(((((-((.....)))))-)))).))(((((((.((((.....)))).))))))).))))))))))---)).. ( -32.91)
>consensus
UCCGCUGACAACUUAUUUGUUGC__CG_______________UCGCAUC_GC_AGCGUU__GGAA_AAGCCGCAACUAAUUACAACAAAAUUGUCAUUAGUUUCAACUUGUCGG___CCG
....(((((((.................................((....))...................(.(((((((.((((.....)))).))))))).)...)))))))...... (-13.17 = -13.33 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:01 2006