Locus 4239

Sequence ID X_DroMel_CAF1
Location 11,119,903 – 11,120,001
Length 98
Max. P 0.995621
window6963 window6964

overview

Window 3

Location 11,119,903 – 11,120,001
Length 98
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 76.05
Mean single sequence MFE -21.84
Consensus MFE -9.85
Energy contribution -11.33
Covariance contribution 1.48
Combinations/Pair 1.23
Mean z-score -1.99
Structure conservation index 0.45
SVM decision value 0.67
SVM RNA-class probability 0.818520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11119903 98 + 22224390
UUUUCGCAUGCAAUUAAUGUUGUUGGCCAUUUUGCAAUUGACCAUCGGCAAUCGGCAAUUGU------U--------UGC---UGGCCAUUUCAUAAUUUGCCAAUCAUUAUUUA
.........((((...(((....((((((.(..(((((((.((..........)))))))))------.--------.).---))))))...)))...))))............. ( -24.60)
>DroSec_CAF1 35256 98 + 1
UUUUCGCAUGCAAUUAAUGUUGUUGGCCAUUUUGCAAUUGACCAACGGCAAUCGGCAAUUGU------U--------UGC---UGGCCAUUUCAUAAUUUGCCAAUCAUUAUUUA
.........((((...(((....((((((.(..(((((((.((..........)))))))))------.--------.).---))))))...)))...))))............. ( -24.60)
>DroEre_CAF1 33936 97 + 1
UUUUCGUAUGCAAUUAAUGUUGUUGGCCAU-UUGCAAUUGACCAUCGGCAAUCGGCAAUUGU------U--------UGC---UGGCCAUUUCAUAAUUUGCCAAUCAUUAUUUA
.........((((...(((....((((((.-..(((((((.((..........)))))))))------.--------...---))))))...)))...))))............. ( -24.00)
>DroYak_CAF1 37968 98 + 1
UUUUCGUAUGCAAUUAAUGUUGUUGGCCAUUUUGCAAUUGACCAACGGCAAUCGGCAAUUGU------U--------UGC---UGACCAUUUCAUAAUUUGCCAAUCAUUAUUUA
.........((((....(((((((((.((.........)).))))))))).(((((((....------)--------)))---)))............))))............. ( -23.00)
>DroMoj_CAF1 43472 110 + 1
UUAUUUC----GUUUAUUAUU-GCGUUCAUUAUUCUUUUGCCAAUUAUUAUUAAAUAUUUGUUAUUGUUGCUGUCGCUGCUGUUGUGUGGUUCACAAUUUGCGCAUCAUAAUUUA
.......----..((((...(-((((...............(((.((((....)))).)))..(((((.((((.(((.......)))))))..)))))..)))))..)))).... ( -13.00)
>consensus
UUUUCGCAUGCAAUUAAUGUUGUUGGCCAUUUUGCAAUUGACCAUCGGCAAUCGGCAAUUGU______U________UGC___UGGCCAUUUCAUAAUUUGCCAAUCAUUAUUUA
.........((((...(((....((((((....(((((((.((..........))))))))).....................))))))...)))...))))............. ( -9.85 = -11.33 +   1.48)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 11,119,903 – 11,120,001
Length 98
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 76.05
Mean single sequence MFE -21.80
Consensus MFE -8.47
Energy contribution -9.67
Covariance contribution 1.20
Combinations/Pair 1.26
Mean z-score -2.67
Structure conservation index 0.39
SVM decision value 2.60
SVM RNA-class probability 0.995621
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11119903 98 - 22224390
UAAAUAAUGAUUGGCAAAUUAUGAAAUGGCCA---GCA--------A------ACAAUUGCCGAUUGCCGAUGGUCAAUUGCAAAAUGGCCAACAACAUUAAUUGCAUGCGAAAA
.............((((...(((...((((((---...--------.------.(((((((((........))).)))))).....))))))....)))...))))......... ( -22.90)
>DroSec_CAF1 35256 98 - 1
UAAAUAAUGAUUGGCAAAUUAUGAAAUGGCCA---GCA--------A------ACAAUUGCCGAUUGCCGUUGGUCAAUUGCAAAAUGGCCAACAACAUUAAUUGCAUGCGAAAA
.............((((...(((...((((((---...--------.------.(((((((((((....))))).)))))).....))))))....)))...))))......... ( -25.90)
>DroEre_CAF1 33936 97 - 1
UAAAUAAUGAUUGGCAAAUUAUGAAAUGGCCA---GCA--------A------ACAAUUGCCGAUUGCCGAUGGUCAAUUGCAA-AUGGCCAACAACAUUAAUUGCAUACGAAAA
.............((((...(((...((((((---...--------.------.(((((((((........))).))))))...-.))))))....)))...))))......... ( -22.50)
>DroYak_CAF1 37968 98 - 1
UAAAUAAUGAUUGGCAAAUUAUGAAAUGGUCA---GCA--------A------ACAAUUGCCGAUUGCCGUUGGUCAAUUGCAAAAUGGCCAACAACAUUAAUUGCAUACGAAAA
.............((((...(((...((((((---...--------.------.(((((((((((....))))).)))))).....))))))....)))...))))......... ( -23.20)
>DroMoj_CAF1 43472 110 - 1
UAAAUUAUGAUGCGCAAAUUGUGAACCACACAACAGCAGCGACAGCAACAAUAACAAAUAUUUAAUAAUAAUUGGCAAAAGAAUAAUGAACGC-AAUAAUAAAC----GAAAUAA
....((((..((((....(((((.....)))))..((.((....))........(((.((((....)))).)))))..............)))-)...))))..----....... ( -14.50)
>consensus
UAAAUAAUGAUUGGCAAAUUAUGAAAUGGCCA___GCA________A______ACAAUUGCCGAUUGCCGAUGGUCAAUUGCAAAAUGGCCAACAACAUUAAUUGCAUGCGAAAA
.............((((...(((...((((((.........................((((.((((((.....).)))))))))..))))))....)))...))))......... ( -8.47 =  -9.67 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:57 2006