Locus 6051

Sequence ID 3L_DroMel_CAF1
Location 16,120,050 – 16,120,246
Length 196
Max. P 0.776700
window9690 window9691 window9692 window9693

overview

Window 0

Location 16,120,050 – 16,120,167
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.64
Mean single sequence MFE -41.20
Consensus MFE -33.47
Energy contribution -33.80
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.81
SVM decision value 0.14
SVM RNA-class probability 0.602395
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16120050 117 + 23771897
GUGUACAGCACU---GUCUGCGCUCCAGUUUCUUCGGCUCGGAUGAUUUUCCAGCUGAGAAUGAUAUAUGGCAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGG
.....(((((((---(((.....((....((((.(((((.(((......)))))))))))).)).....))))))..))))(((((((..((((((.....))))))..))))))).... ( -42.30)
>DroSec_CAF1 5772 117 + 1
GUGUACAGCACU---GUCUGCGCUCCAGUUUCUUCGGCUCGGAUGAUUUUCCAGCUCGGAAUGAUAUAUGACAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGG
.....(((((((---(((.........(((((...((((.(((......))))))).))))).......))))))..))))(((((((..((((((.....))))))..))))))).... ( -39.69)
>DroSim_CAF1 5125 120 + 1
GUGUACAGCACUGCUGUCUGCGCUCCAGUUUCUUCGGCUCGGAUGAUUUUCCAGCUCGGAAUGAUAUAUGGCAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGG
.....((((((((((((.((((.(((.(......)((((.(((......))))))).))).)).)).))))))))..))))(((((((..((((((.....))))))..))))))).... ( -41.60)
>consensus
GUGUACAGCACU___GUCUGCGCUCCAGUUUCUUCGGCUCGGAUGAUUUUCCAGCUCGGAAUGAUAUAUGGCAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGG
.....((((......(....)((((((...(((((((((.(((......)))))))..))).))....))).)))..))))(((((((..((((((.....))))))..))))))).... (-33.47 = -33.80 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,120,050 – 16,120,167
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.64
Mean single sequence MFE -38.03
Consensus MFE -32.70
Energy contribution -32.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.86
SVM decision value -0.05
SVM RNA-class probability 0.506859
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16120050 117 - 23771897
CCGUGGCGUAUGAGUAAUCGAUGGGAUUACGUAUACGCCCAGCUAACUGCCAUAUAUCAUUCUCAGCUGGAAAAUCAUCCGAGCCGAAGAAACUGGAGCGCAGAC---AGUGCUGUACAC
....((((((((.((((((.....)))))).))))))))((((..((((..........(((((.((((((......))).))).).)))).(((.....))).)---)))))))..... ( -36.40)
>DroSec_CAF1 5772 117 - 1
CCGUGGCGUAUGAGUAAUCGAUGGGAUUACGUAUACGCCCAGCUAACUGUCAUAUAUCAUUCCGAGCUGGAAAAUCAUCCGAGCCGAAGAAACUGGAGCGCAGAC---AGUGCUGUACAC
....((((((((.((((((.....)))))).))))))))((((..((((((.....((.(((((.((((((......))).)))))..)))....)).....)))---)))))))..... ( -38.70)
>DroSim_CAF1 5125 120 - 1
CCGUGGCGUAUGAGUAAUCGAUGGGAUUACGUAUACGCCCAGCUAACUGCCAUAUAUCAUUCCGAGCUGGAAAAUCAUCCGAGCCGAAGAAACUGGAGCGCAGACAGCAGUGCUGUACAC
....((((((((.((((((.....)))))).))))))))((((..(((((............((.((((((......))).)))))......(((.....)))...)))))))))..... ( -39.00)
>consensus
CCGUGGCGUAUGAGUAAUCGAUGGGAUUACGUAUACGCCCAGCUAACUGCCAUAUAUCAUUCCGAGCUGGAAAAUCAUCCGAGCCGAAGAAACUGGAGCGCAGAC___AGUGCUGUACAC
(((.((((((((.((((((.....)))))).)))))))))................((.(((...((((((......))).))).)))))....))(((((........)))))...... (-32.70 = -32.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,120,087 – 16,120,206
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -41.60
Consensus MFE -36.43
Energy contribution -37.77
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.88
SVM decision value 0.29
SVM RNA-class probability 0.669414
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16120087 119 + 23771897
GGAUGAUUUUCCAGCUGAGAAUGAUAUAUGGCAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGAGCCGUGGAAUUGCGUUGUU-GCGUUACAGCAA
(((......))).((((..((((..(((..((((((.....(((((((..((((((.....))))))..)))))))((((.((...)).))))..))))))..))).-.)))).)))).. ( -39.90)
>DroSec_CAF1 5809 120 + 1
GGAUGAUUUUCCAGCUCGGAAUGAUAUAUGACAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGCGCCGGCGAAUUGCGUUGUUGGCGUUACAGCAA
(((......))).(((((.............(((....)))(((((((..((((((.....))))))..))))))).)))))...(((((((((((......)))))))))))....... ( -42.50)
>DroSim_CAF1 5165 120 + 1
GGAUGAUUUUCCAGCUCGGAAUGAUAUAUGGCAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGCGCCGGCGAAUUGCGUUGUUGGCGUUACAGCAA
(((......))).(((.(...((((...((.(((....)))(((((((..((((((.....))))))..))))))).)).)))).(((((((((((......))))))))))).)))).. ( -42.40)
>consensus
GGAUGAUUUUCCAGCUCGGAAUGAUAUAUGGCAGUUAGCUGGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGCGCCGGCGAAUUGCGUUGUUGGCGUUACAGCAA
(((......))).(((.....((((...((.(((....)))(((((((..((((((.....))))))..))))))).)).)))).(((((((((((......)))))))))))..))).. (-36.43 = -37.77 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,120,127 – 16,120,246
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -37.33
Consensus MFE -32.33
Energy contribution -33.00
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 0.87
SVM decision value 0.55
SVM RNA-class probability 0.776700
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16120127 119 + 23771897
GGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGAGCCGUGGAAUUGCGUUGUU-GCGUUACAGCAAUUGUCUGCAGAUAAGCAAAACCAUUUCAAUUAAUAUCUUC
.(((((((..((((((.....))))))..)))))))((((.((...)).))))((..(((((((((.-.....)))))..(((((....)))))))))..)).................. ( -36.40)
>DroSec_CAF1 5849 120 + 1
GGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGCGCCGGCGAAUUGCGUUGUUGGCGUUACAGCAAUUGUCUGCAGAUAAGCAAAGCCAUUUCAAUUAAUUUCUUC
.(((((((..((((((.....))))))..)))))))...(((...(((((((((((......)))))))))))...((..(((((....)))))))...))).................. ( -37.80)
>DroSim_CAF1 5205 120 + 1
GGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGCGCCGGCGAAUUGCGUUGUUGGCGUUACAGCAAUUGUCUGCAGAUAAGCAAAGCCAUUUCAAUUAAUUUCUUC
.(((((((..((((((.....))))))..)))))))...(((...(((((((((((......)))))))))))...((..(((((....)))))))...))).................. ( -37.80)
>consensus
GGGCGUAUACGUAAUCCCAUCGAUUACUCAUACGCCACGGGUCACAGCGCCGGCGAAUUGCGUUGUUGGCGUUACAGCAAUUGUCUGCAGAUAAGCAAAGCCAUUUCAAUUAAUUUCUUC
.(((((((..((((((.....))))))..)))))))...(((......)))(((...(((((((((.......)))))..(((((....))))))))).))).................. (-32.33 = -33.00 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:18 2006