Locus 2669

Sequence ID 2R_DroMel_CAF1
Location 9,414,086 – 9,414,196
Length 110
Max. P 0.764472
window4390 window4391

overview

Window 0

Location 9,414,086 – 9,414,196
Length 110
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.70
Mean single sequence MFE -22.52
Consensus MFE -14.69
Energy contribution -14.66
Covariance contribution -0.02
Combinations/Pair 1.55
Mean z-score -1.57
Structure conservation index 0.65
SVM decision value 0.51
SVM RNA-class probability 0.764472
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9414086 110 + 20766785
CUCGAGGCGAAGGCAACACCUUCGAAAAGCCUCAAUAGAUCCCAAAACAACAAAUUCG---------GAUUACUUUGAAAUGGAUCAACUACAUAGAAAGAAAUUGAGGCUAAAGAUGU
.......((((((.....))))))...(((((((((.(((((............((((---------((....))))))..)))))..((....))......)))))))))........ ( -26.04)
>DroPse_CAF1 3891 110 + 1
CUCGGUACGAAGGCAACGCCUCUGAAAGUCUGCCGAAGAUUCCCAAGCUACCAUUUGGCACACAUUGAAUCACUUAAAA--AAAUUAAUCACAGAUC-GGAAAAGAAAGAUAA------
.((....(((.(((...)))((((...((.(((((((................))))))).)).((((.....))))..--..........))))))-).....)).......------ ( -16.69)
>DroSec_CAF1 3338 110 + 1
CUCGAGGCGAAGGCAACACCUCCGAAAAGCCUCAAUAGAUCCCAAAACAACAAAUUCG---------GAUUACUUUGAAAUGGAUCAACUACAUAGAAAGGAAUUGAGGCUAAAGAUGU
.((((((....(....).))).)))..(((((((((.(((((...............)---------)))).((((...(((.........)))...)))).)))))))))........ ( -23.66)
>DroSim_CAF1 10011 110 + 1
CUCGAGGCGAAGGCAACACCUCCGAAAAGCCUCGACAGAUCCCAAAACAACAAAUUCG---------GAUUACUUUGAAAUGGAUCAACUACAUAGAAAGAAAUUGAGGCUAAAGAUGU
.((((((....(....).))).)))..((((((((..(((((............((((---------((....))))))..)))))..((....)).......))))))))........ ( -21.74)
>DroEre_CAF1 3255 110 + 1
CUCGAGGCGAAGGCAACACCUUCGAAAAGCCCCAACAGAUCCCAAAACAACAAAUUCG---------GAUUACUUUGAAAUGGAUCAACUACAUAGAAAGAAAUGAAAGCUAAAGAUAU
.......((((((.....))))))...(((.......(((((............((((---------((....))))))..))))).....(((........)))...)))........ ( -15.74)
>DroYak_CAF1 3361 110 + 1
CUCGAGGCGAAGGCAACACCUUCGAAAAGCCCCAAAAGAUCCCAAAACAACAAAUUCG---------GAUAACUUUGAAGUGGAUCAACUUCAUACAAUGAAAUUGGGGCUUAGGAACU
.......((((((.....))))))..(((((((((..(((((............((((---------((....))))))..)))))...(((((...))))).)))))))))....... ( -31.24)
>consensus
CUCGAGGCGAAGGCAACACCUCCGAAAAGCCUCAAAAGAUCCCAAAACAACAAAUUCG_________GAUUACUUUGAAAUGGAUCAACUACAUAGAAAGAAAUUGAGGCUAAAGAUGU
.((((((....(....)..))))))..((((((((..(((((.......................................)))))..((........))...))))))))........ (-14.69 = -14.66 +  -0.02)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,414,086 – 9,414,196
Length 110
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 78.70
Mean single sequence MFE -26.48
Consensus MFE -20.34
Energy contribution -19.41
Covariance contribution -0.93
Combinations/Pair 1.50
Mean z-score -1.19
Structure conservation index 0.77
SVM decision value 0.43
SVM RNA-class probability 0.732548
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9414086 110 - 20766785
ACAUCUUUAGCCUCAAUUUCUUUCUAUGUAGUUGAUCCAUUUCAAAGUAAUC---------CGAAUUUGUUGUUUUGGGAUCUAUUGAGGCUUUUCGAAGGUGUUGCCUUCGCCUCGAG
........(((((((((.((....(((....((((......)))).)))..(---------((((........)))))))...)))))))))..((((.((((.......)))))))). ( -27.80)
>DroPse_CAF1 3891 110 - 1
------UUAUCUUUCUUUUCC-GAUCUGUGAUUAAUUU--UUUUAAGUGAUUCAAUGUGUGCCAAAUGGUAGCUUGGGAAUCUUCGGCAGACUUUCAGAGGCGUUGCCUUCGUACCGAG
------..............(-(.(((((..((((...--..))))..(((((...((.((((....))))))....)))))....)))))......(((((...))))).....)).. ( -18.90)
>DroSec_CAF1 3338 110 - 1
ACAUCUUUAGCCUCAAUUCCUUUCUAUGUAGUUGAUCCAUUUCAAAGUAAUC---------CGAAUUUGUUGUUUUGGGAUCUAUUGAGGCUUUUCGGAGGUGUUGCCUUCGCCUCGAG
........(((((((((.......(((....((((......)))).))).((---------((((........))))))....))))))))).....((((((.......))))))... ( -27.60)
>DroSim_CAF1 10011 110 - 1
ACAUCUUUAGCCUCAAUUUCUUUCUAUGUAGUUGAUCCAUUUCAAAGUAAUC---------CGAAUUUGUUGUUUUGGGAUCUGUCGAGGCUUUUCGGAGGUGUUGCCUUCGCCUCGAG
..(((((.(((..(((.(((....(((....((((......)))).)))...---------.))).)))..)))..)))))...(((((((.....(((((.....)))))))))))). ( -26.90)
>DroEre_CAF1 3255 110 - 1
AUAUCUUUAGCUUUCAUUUCUUUCUAUGUAGUUGAUCCAUUUCAAAGUAAUC---------CGAAUUUGUUGUUUUGGGAUCUGUUGGGGCUUUUCGAAGGUGUUGCCUUCGCCUCGAG
........((((..(((........))).))))(((((....(((((((((.---------.......))))))))))))))..(((((((.....(((((.....)))))))))))). ( -24.50)
>DroYak_CAF1 3361 110 - 1
AGUUCCUAAGCCCCAAUUUCAUUGUAUGAAGUUGAUCCACUUCAAAGUUAUC---------CGAAUUUGUUGUUUUGGGAUCUUUUGGGGCUUUUCGAAGGUGUUGCCUUCGCCUCGAG
.......(((((((((..((......((((((......)))))).......(---------((((........)))))))....))))))))).((((.((((.......)))))))). ( -33.20)
>consensus
ACAUCUUUAGCCUCAAUUUCUUUCUAUGUAGUUGAUCCAUUUCAAAGUAAUC_________CGAAUUUGUUGUUUUGGGAUCUAUUGAGGCUUUUCGAAGGUGUUGCCUUCGCCUCGAG
........(((((((((................(((((....(((((((((.................)))))))))))))).)))))))))...(((((((...)))))))....... (-20.34 = -19.41 +  -0.93)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:52 2006