Locus 3383

Sequence ID X_DroMel_CAF1
Location 9,009,205 – 9,009,352
Length 147
Max. P 0.892852
window5540 window5541

overview

Window 0

Location 9,009,205 – 9,009,313
Length 108
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 84.97
Mean single sequence MFE -18.70
Consensus MFE -13.97
Energy contribution -13.87
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -1.91
Structure conservation index 0.75
SVM decision value 0.19
SVM RNA-class probability 0.626528
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9009205 108 - 22224390
UUCUCAAUUUCGUUCGUAUUGGUGUGCGCAAGCUCACUCA-ACGCGGCAAAAA-----AUGAAAUACGAAUACGAAAAACGGCACCCACACAUACAGAAUACAAAAAAAAA---CAC
((((...(((((((((((((((((.((....)).))))..-......((....-----.)).)))))))..))))))...((...))........))))............---... ( -19.80)
>DroEre_CAF1 3593 117 - 1
UUCUCAAUCCCGUUUGCAUUGGUGUGCGCAAGCUCACUCAAACGCGGCAAAAAAAAAAAUAAAAUACGAAUACGAAGAACGACACCUACACAUACGGAAUACAAAAAAAAAAAAAAA
.........((((.((....(((((((....)).................................((....)).......)))))....)).)))).................... ( -17.80)
>DroYak_CAF1 4128 105 - 1
UUCUCAAUCGCGUUUGUAUUGGUGUGCGCAAGCUCACUCA-ACGCGGCAAAAAAAAG----AAAUACGAAUACGAA-AACGGCACCCACACAUACAGAAUACAAAAAAAAA------
((((...(((..((((((((((((.((....)).))))..-................----.))))))))..))).-...((...))........))))............------ ( -18.50)
>consensus
UUCUCAAUCCCGUUUGUAUUGGUGUGCGCAAGCUCACUCA_ACGCGGCAAAAAAAA__AU_AAAUACGAAUACGAA_AACGGCACCCACACAUACAGAAUACAAAAAAAAA____A_
((((.......(((((((((((((.((....)).))))(......)................))))))))).((.....))..............)))).................. (-13.97 = -13.87 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 9,009,242 – 9,009,352
Length 110
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 88.44
Mean single sequence MFE -28.78
Consensus MFE -24.21
Energy contribution -24.43
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -2.52
Structure conservation index 0.84
SVM decision value 0.97
SVM RNA-class probability 0.892852
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9009242 110 - 22224390
GAGAGAGAGAGAGCGAAAAAUCGGUUAUGCGAAGAAAAGUUCUCAAUUUCGUUCGUAUUGGUGUGCGCAAGCUCACUCA-ACGCGGCAAAAA-----AUGAAAUACGAAUACGAAA
..((((..((((((......(((......)))......))))))..))))(((((((((((((.((....)).))))..-......((....-----.)).)))))))))...... ( -30.50)
>DroEre_CAF1 3633 116 - 1
AAGAGAGGGAGAGCGAAAAAUCGGCUAUGCGAAGAAAAGUUCUCAAUCCCGUUUGCAUUGGUGUGCGCAAGCUCACUCAAACGCGGCAAAAAAAAAAAUAAAAUACGAAUACGAAG
........((((((......(((......)))......))))))...((((((((....((((.((....)).)))))))))).)).............................. ( -27.60)
>DroYak_CAF1 4162 110 - 1
GAGAGAGGGAGAGCGAAAAAGCGGUUAUGCGAAGAAAAGUUCUCAAUCGCGUUUGUAUUGGUGUGCGCAAGCUCACUCA-ACGCGGCAAAAAAAAG----AAAUACGAAUACGAA-
........((((((......(((....)))........))))))..(((..((((((((((((.((....)).))))..-................----.))))))))..))).- ( -28.24)
>consensus
GAGAGAGGGAGAGCGAAAAAUCGGUUAUGCGAAGAAAAGUUCUCAAUCCCGUUUGUAUUGGUGUGCGCAAGCUCACUCA_ACGCGGCAAAAAAAA__AU_AAAUACGAAUACGAA_
..(.((..((((((......(((......)))......))))))..)).)(((((((((((((.((....)).))))(......)................)))))))))...... (-24.21 = -24.43 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:03 2006