Locus 1093

Sequence ID 3L_DroMel_CAF1
Location 3,200,385 – 3,200,545
Length 160
Max. P 0.892410
window1691 window1692

overview

Window 1

Location 3,200,385 – 3,200,505
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.50
Mean single sequence MFE -29.82
Consensus MFE -19.78
Energy contribution -18.98
Covariance contribution -0.80
Combinations/Pair 1.46
Mean z-score -1.49
Structure conservation index 0.66
SVM decision value 0.06
SVM RNA-class probability 0.562248
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3200385 120 - 23771897
AACAAGUUCCUCAAUUUGUUGUUGAAUCAACGACAAUGGAGCAUGGAACUCAUGGUGGAAACUCUUUGGUCAAAUCUAGGUAACUCCAUCAACGACACCAACAACUUGAAAAAGACUCAU
....((((((....((..((((((......))))))..))....))))))..(((((((....(((.(((...))).)))....))))))).............(((....)))...... ( -28.30)
>DroVir_CAF1 20898 120 - 1
AAUAAGUUCCUCAAUUUACUGCUCAAUCAGCGGCAAUGGAGCAUGGAAUUGAUGGUGGAGACGCUCUGGUCUAAUCUGGGCAACUCCAACAACGACACAAACAAUCUGAAAAAGACGCAU
.....((((((((((((..(((((.((........)).)))))..))))))).))(((((..((((.(((...))).))))..))))).....)))........(((.....)))..... ( -27.60)
>DroGri_CAF1 22603 120 - 1
AACAAGUUUCUCAAUUUGCUGCUGAAUAAGCGGCAAUGGAGCAUGGAAUUAAUGGUGGAGACAUUGUGGUCCAAUUUGGGUAACUCCAAUAACGACACCAAUAACCUCAAGAAGACACAU
.....((((.((...((((((((.....))))))))(((....((((....(..(((....)))..)..))))..(((((....)))))........)))..........)))))).... ( -32.10)
>DroWil_CAF1 19556 120 - 1
AAUAAAUUUCUCAAUUUGCUGCUAAAUCAGCGACAAUGGACUAUGGAGCUAAUGGUAGAGACUCUUUGGUCGAAUUUGGGCAAUUCUAUAAAUGAUACAAACAAUCUAAAGAAGACCCAU
.......(((.....((((((......)))))).....(((((.((((((........)).)))).))))))))..((((...((((......(((.......)))...))))..)))). ( -23.80)
>DroMoj_CAF1 19019 120 - 1
AAUAAGUUUCUUAAUUUGUUGCUCAAUCAGCGGCAAUGGAGCAUGGAGCUAAUGGUGGAAACGCUGUGGUCUAAUCUGGGCAACUCCAACAACGACACAAACAAUCUAAAGAAGACGCAU
.....(((((.....((((((((.....)))))))).))))).(((((...((((((....)))))).((((.....))))..)))))................................ ( -28.80)
>DroAna_CAF1 18749 120 - 1
AACAAGUUCCUGAAUCUGCUGUUGGGCCAGCGACAGUGGAGCAUGGAGCUCAUGGUGGAGACACUGUGGUCGAACUUGGGCAAUUCCAUAAACGAUACCAACAACCUGAAGAAGACCCAU
....((((((....((..((((((......))))))..))....))))))(((((((....)))))))((((....((((....))))....))))........................ ( -38.30)
>consensus
AACAAGUUCCUCAAUUUGCUGCUGAAUCAGCGACAAUGGAGCAUGGAACUAAUGGUGGAGACACUGUGGUCGAAUCUGGGCAACUCCAACAACGACACAAACAACCUGAAGAAGACCCAU
.....(((((.....((((((((.....)))))))).))))).((((....(..(((....)))..).(((.......)))...))))................................ (-19.78 = -18.98 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,200,425 – 3,200,545
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.67
Mean single sequence MFE -37.90
Consensus MFE -20.65
Energy contribution -19.38
Covariance contribution -1.27
Combinations/Pair 1.56
Mean z-score -2.29
Structure conservation index 0.54
SVM decision value 0.97
SVM RNA-class probability 0.892410
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3200425 120 - 23771897
CUUGGAGCAGAUCGAGGAAAAGCGAAGUAAUCUCUAUGAGAACAAGUUCCUCAAUUUGUUGUUGAAUCAACGACAAUGGAGCAUGGAACUCAUGGUGGAAACUCUUUGGUCAAAUCUAGG
((((((...(((((((((...............(((((((..((.(((((.....(((((((((...))))))))).))))).))...))))))).(....))))))))))...)))))) ( -40.70)
>DroVir_CAF1 20938 120 - 1
ACUGGAGCAAAUUGAGGAGAAGCGGAGUUCUCUGUAUCGCAAUAAGUUCCUCAAUUUACUGCUCAAUCAGCGGCAAUGGAGCAUGGAAUUGAUGGUGGAGACGCUCUGGUCUAAUCUGGG
.(..((((((((((((((((.(((((....))))).))((.....)))))))))))).(((((.....))))).......)).((((......((((....))))....)))).))..). ( -36.90)
>DroGri_CAF1 22643 120 - 1
GCUCGAACAGAUUGAGGAGAAACGCAGUUCGCUGUAUCGCAACAAGUUUCUCAAUUUGCUGCUGAAUAAGCGGCAAUGGAGCAUGGAAUUAAUGGUGGAGACAUUGUGGUCCAAUUUGGG
((((............(((((((...(((.((......)))))..)))))))...((((((((.....))))))))..)))).((((....(..(((....)))..)..))))....... ( -42.40)
>DroWil_CAF1 19596 120 - 1
UCUCGAACAGAUUGAGGAGAAGCGCAGCUCACUGUAUAAUAAUAAAUUUCUCAAUUUGCUGCUAAAUCAGCGACAAUGGACUAUGGAGCUAAUGGUAGAGACUCUUUGGUCGAAUUUGGG
.((((((..(((..(((((....((((....)))).............((((...((((((......))))))......(((((.......))))).)))))))))..)))...)))))) ( -31.50)
>DroMoj_CAF1 19059 120 - 1
GCUCGAGCAGAUCGAGGAAAAACGUAGUUCUCUAUAUCGCAAUAAGUUUCUUAAUUUGUUGCUCAAUCAGCGGCAAUGGAGCAUGGAGCUAAUGGUGGAAACGCUGUGGUCUAAUCUGGG
.((.((..(((((...........(((((((.......((((((((((....))))))))))..........((......))..)))))))((((((....)))))))))))..)).)). ( -32.50)
>DroAna_CAF1 18789 120 - 1
GUUGAAGCAAAUCGAGGAGAAGAGGAGCUCUGUGUAUGAGAACAAGUUCCUGAAUCUGCUGUUGGGCCAGCGACAGUGGAGCAUGGAGCUCAUGGUGGAGACACUGUGGUCGAACUUGGG
...........(((((..((....(((((((((((....(((....))).....((..((((((......))))))..)))))))))))))((((((....))))))..))...))))). ( -43.40)
>consensus
GCUCGAGCAGAUCGAGGAGAAGCGCAGUUCUCUGUAUCACAACAAGUUCCUCAAUUUGCUGCUGAAUCAGCGACAAUGGAGCAUGGAACUAAUGGUGGAGACACUGUGGUCGAAUCUGGG
.(..((...((((............(((((..(((......))).(((((.....((((((((.....)))))))).)))))...))))).(..(((....)))..)))))...))..). (-20.65 = -19.38 +  -1.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:51 2006