Locus 1372

Sequence ID X_DroMel_CAF1
Location 4,108,177 – 4,108,317
Length 140
Max. P 0.757723
window2186 window2187

overview

Window 6

Location 4,108,177 – 4,108,277
Length 100
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 94.32
Mean single sequence MFE -32.38
Consensus MFE -28.82
Energy contribution -29.18
Covariance contribution 0.36
Combinations/Pair 1.16
Mean z-score -1.29
Structure conservation index 0.89
SVM decision value 0.49
SVM RNA-class probability 0.757723
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4108177 100 - 22224390
ACUCAC-GCACUCAAGGCGCGCGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUUCCGUGCCGAAUUGCCUAUAAUUCGACGCAAAAUGCACUCG
.(((.(-((((.....((((((((....)))))))).(((((...))))))))))))).....(((.(((((((....))))))).)))............ ( -35.40)
>DroSec_CAF1 119993 100 - 1
ACUCAC-GCACUCGAGGCGCGCGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUUCCGUACCGAAUUGCCUAUAAUUCGACGCAAAAUGCACUCG
......-.....((((((((((((....))))))))..(((((...((((((((((.....))))))(((((((....)))))))))))...))))))))) ( -38.40)
>DroSim_CAF1 121169 101 - 1
ACUCACAGCACUCAAGGCGCGCGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUUCCGUACCGAAUUACCUCUACUUCGACGCAAAAUGCACUCG
.......((((.((..((((((((....))))))))..)).))...((((((((((.....))))))((((.((....)).)))))))).....))..... ( -31.90)
>DroEre_CAF1 126333 100 - 1
ACUCAC-GCACUCAAGGCGGGCACACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUUCCGUACCGAAUUGCCUAUAAUUUGACGCAAAAUGCACUGG
.....(-((.(....)))).((((((....))))))..(((((...((((((((((.....))))))(((((((....)))))))))))...))))).... ( -32.20)
>DroYak_CAF1 119816 100 - 1
ACUCAC-GCACUCAAGGCGGGCUCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUUCCAUACCGAAUUGCCUAUAAUUUGACGCAAAAUACACUGG
.....(-((.(....))))......((.((((((....(((((......((((.((..((((......))))..)))))).....)))))..)))))))). ( -24.00)
>consensus
ACUCAC_GCACUCAAGGCGCGCGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUUCCGUACCGAAUUGCCUAUAAUUCGACGCAAAAUGCACUCG
.......((((.((..((((((((....))))))))..)).))...((((((((((.....))))))(((((((....))))))))))).....))..... (-28.82 = -29.18 +   0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,108,217 – 4,108,317
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.73
Mean single sequence MFE -36.73
Consensus MFE -20.26
Energy contribution -22.88
Covariance contribution 2.61
Combinations/Pair 1.10
Mean z-score -2.42
Structure conservation index 0.55
SVM decision value 0.28
SVM RNA-class probability 0.667157
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4108217 100 - 22224390
UUGCUAAUCUAAUUUGCAGUUAUUGGCGGGCCAGAUUAGCA------CUCAC--GCA--------CUCAAGGCGCG----CGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUU
.(((((((((..(((((........)))))..)))))))))------(((.(--(((--------(.....(((((----(((....)))))))).(((((...)))))))))))))... ( -41.40)
>DroSec_CAF1 120033 100 - 1
UUGCUAAUCUAAUUUGCAGUUAUUGGCGGGCCAGAUUAGCA------CUCAC--GCA--------CUCGAGGCGCG----CGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUU
.(((((((((..(((((........)))))..)))))))))------(((.(--(((--------(.((..(((((----(((((....))))))...))))....)).))))))))... ( -43.10)
>DroSim_CAF1 121209 101 - 1
UUGCUAAUCUAAUUUGCAAUUAUUGGCGGGCCACAUUAGCA------CUCACA-GCA--------CUCAAGGCGCG----CGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUU
.(((((((....(((((........)))))....)))))))------(((...-(((--------(.....(((((----(((....)))))))).(((((...))))))))).)))... ( -33.30)
>DroEre_CAF1 126373 100 - 1
UUGCUAAUCUAAUUUGCAGUUAUUGGCGGGCCAGAUUAGCA------CUCAC--GCA--------CUCAAGGCGGG----CACACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUU
.(((((((((..(((((........)))))..)))))))))------(((.(--(((--------(.........(----(((((....)))))).(((((...)))))))))))))... ( -38.30)
>DroYak_CAF1 119856 84 - 1
----------------CAGUUAUUGGCGGGCCAGAUUAGCA------CUCAC--GCA--------CUCAAGGCGGG----CUCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUU
----------------..((((((((....))))..)))).------(((.(--(((--------(...(.(((.(----(......)).))).).(((((...)))))))))))))... ( -25.30)
>DroAna_CAF1 149768 120 - 1
UUGCUAAUCUAAUUUGCAGUUAUUGGUGGGCCAGAUUAGCCAACACACCCACAUGCACGCCCAGAGUCAUGGCCGACACACACGCAUGUGUGUGUAAUGCGAUUCGCGUGCUUAAAGAUU
..((((((((..((..(........)..))..))))))))..............((((((...(((((...((..((((((((....))))))))...)))))))))))))......... ( -39.00)
>consensus
UUGCUAAUCUAAUUUGCAGUUAUUGGCGGGCCAGAUUAGCA______CUCAC__GCA________CUCAAGGCGCG____CGCACAUGUGUGUGUAAUGCGUAUCGCGUGUGCGGAGAUU
..((((((((..(((((........)))))..)))))))).......(((....((...............)).......((((((((((..((.....))...)))))))))))))... (-20.26 = -22.88 +   2.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:40 2006