Locus 5254

Sequence ID 2L_DroMel_CAF1
Location 14,815,577 – 14,815,763
Length 186
Max. P 0.979237
window8365 window8366 window8367 window8368

overview

Window 5

Location 14,815,577 – 14,815,697
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -29.79
Consensus MFE -26.57
Energy contribution -27.43
Covariance contribution 0.86
Combinations/Pair 1.03
Mean z-score -1.92
Structure conservation index 0.89
SVM decision value 1.71
SVM RNA-class probability 0.973447
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14815577 120 - 22407834
UUUACUUUCGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUUUUUGGUCCCCAAAUCAAAGGGGAGU
(((((((((.(((((.....(..((((.....))))..)......))))).)))))))))............(((.((((((........)))))).)))(((((........))))).. ( -33.20)
>DroSec_CAF1 57060 119 - 1
UUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUUUUUGGUCCCCA-AUCAAAGGGGAGU
(((((((((.(((((.....(..((((.....))))..)......))))).)))))))))............(((.((((((........)))))).)))(((((.-......))))).. ( -31.40)
>DroSim_CAF1 57621 120 - 1
UUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUUUUUGGUCCCCAAAUCAAAGGGGAGU
(((((((((.(((((.....(..((((.....))))..)......))))).)))))))))............(((.((((((........)))))).)))(((((........))))).. ( -31.70)
>DroEre_CAF1 52877 120 - 1
UUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGACUGGCGGAAAGUAAAGAAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUUUUUGGUCCCCAAAUCAAAGGGGAGU
(((((((((.((((......(..((((.....))))..).......)))).)))))))))............(((.((((((........)))))).)))(((((........))))).. ( -28.62)
>DroYak_CAF1 54488 120 - 1
UUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGAAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUUUUUGUUCCCCAAAUCAAAGGGGAGU
(((((((((.(((((.....(..((((.....))))..)......))))).)))))))))(((((....))))).........................((((((........)))))). ( -32.00)
>DroAna_CAF1 52704 118 - 1
UUUACUUUUGGUCACAGAAACUUCUGCAGAUGGCAGCUGGCAGGGCUGGGGGAAAGUAAAGCAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUU--UGCUACCGAAGUCAAAGGGGAGC
....((((((.........(((((.((((((..(((((.....)))))(..(((.((........)).)))..)..................)))--)))....)))))))))))..... ( -21.80)
>consensus
UUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAUUUAAAAUUGCAAAUUUUUGGUCCCCAAAUCAAAGGGGAGU
(((((((((.(((((.....(..((((.....))))..)......))))).))))))))).............((.((((((........)))))).)).(((((........))))).. (-26.57 = -27.43 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,815,617 – 14,815,733
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.02
Mean single sequence MFE -20.34
Consensus MFE -17.68
Energy contribution -18.68
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.87
SVM decision value 0.58
SVM RNA-class probability 0.789390
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14815617 116 + 22407834
AUUUAUGAAAAAUGUUUUGCUUUACUUUCCGCCACUCUUGCCAGCUGCCAACUGCAGAAGUUUUUGUGACCGAAAGUAAAGUUUGUCAAAACAAAAAAAA----AAAAAGAGAAGAAACC
............(((((((((((((((((.(.(((....((...((((.....))))..))....))).).)))))))))).....))))))).......----................ ( -25.40)
>DroSim_CAF1 57661 120 + 1
AUUUAUGAAAAAUGUUUUGCUUUACUUUCCGCCACUCUUGCCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAAAACAAAAAAGAAAAGAAACC
............((((((((((((((((..(.(((....((...((((.....))))..))....))).)..))))))))))((((....))))....))))))................ ( -22.00)
>DroEre_CAF1 52917 106 + 1
AUUUAUGAAAAAUGUUUUUCUUUACUUUCCGCCAGUCUUGCCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAACAAAA--------------AAUCC
............((((((.(((((((((..(((((....((...((((.....))))..))..))).).)..)))))))))......))))))........--------------..... ( -15.30)
>DroYak_CAF1 54528 106 + 1
AUUUAUGAAAAAUGUUUUUCUUUACUUUCCGCCACUCUUGCCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAAA--------------UGUCC
...........(((((((((((((((((..(.(((....((...((((.....))))..))....))).)..)))))))))(((((....))))).)))))--------------))).. ( -19.10)
>DroAna_CAF1 52742 103 + 1
AUUUAUGAAAAAUGUUUUGCUUUACUUUCCCCCAGCCCUGCCAGCUGCCAUCUGCAGAAGUUUCUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAA-----------------AUC
............((((((((((((((((....((((.......))))......(((((....))))).....))))))))).....))))))).......-----------------... ( -19.90)
>consensus
AUUUAUGAAAAAUGUUUUGCUUUACUUUCCGCCACUCUUGCCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAAA______________AAACC
............((((((((((((((((..(.(((....((...((((.....))))..))....))).)..))))))))).....)))))))........................... (-17.68 = -18.68 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 14,815,617 – 14,815,733
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.02
Mean single sequence MFE -26.72
Consensus MFE -24.54
Energy contribution -25.38
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.92
SVM decision value 1.83
SVM RNA-class probability 0.979237
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14815617 116 - 22407834
GGUUUCUUCUCUUUUU----UUUUUUUUGUUUUGACAAACUUUACUUUCGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAU
................----.......(((((((.....((((((((((.(((((.....(..((((.....))))..)......))))).)))))))))))))))))............ ( -29.90)
>DroSim_CAF1 57661 120 - 1
GGUUUCUUUUCUUUUUUGUUUUUUUUUUGUUUUGACAAACUUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAU
...........................(((((((.....((((((((((.(((((.....(..((((.....))))..)......))))).)))))))))))))))))............ ( -28.40)
>DroEre_CAF1 52917 106 - 1
GGAUU--------------UUUUGUUUUGUUUUGACAAACUUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGACUGGCGGAAAGUAAAGAAAAACAUUUUUCAUAAAU
.((..--------------...((((((((....))...((((((((((.((((......(..((((.....))))..).......)))).)))))))))).))))))....))...... ( -24.42)
>DroYak_CAF1 54528 106 - 1
GGACA--------------UUUUUUUUUGUUUUGACAAACUUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGAAAAACAUUUUUCAUAAAU
.....--------------........((((((......((((((((((.(((((.....(..((((.....))))..)......))))).)))))))))).))))))............ ( -26.00)
>DroAna_CAF1 52742 103 - 1
GAU-----------------UUUUUUUUGUUUUGACAAACUUUACUUUUGGUCACAGAAACUUCUGCAGAUGGCAGCUGGCAGGGCUGGGGGAAAGUAAAGCAAAACAUUUUUCAUAAAU
...-----------------.......(((((((....(((((.((((..(((.(((......((((.....)))))))....)))..)))))))))....)))))))............ ( -24.90)
>consensus
GGUUU______________UUUUUUUUUGUUUUGACAAACUUUACUUUUGGUCACAAAAACUUCUGCAGUUGGCAGCUGGCAAGAGUGGCGGAAAGUAAAGCAAAACAUUUUUCAUAAAU
...........................(((((((.....((((((((((.(((((.....(..((((.....))))..)......))))).)))))))))))))))))............ (-24.54 = -25.38 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,815,657 – 14,815,763
Length 106
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 85.78
Mean single sequence MFE -19.42
Consensus MFE -16.16
Energy contribution -17.00
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.83
SVM decision value 0.75
SVM RNA-class probability 0.841530
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14815657 106 + 22407834
CCAGCUGCCAACUGCAGAAGUUUUUGUGACCGAAAGUAAAGUUUGUCAAAACAAAAAAAA----AAAAAGAGAAGAAACCGAAAACUUUGCUUUGCUUCAUUUUGUAGCC
...(((((.((((.....))))...((((...((((((((((((................----..................))))))))))))...))))...))))). ( -18.28)
>DroSim_CAF1 57701 110 + 1
CCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAAAACAAAAAAGAAAAGAAACCGAAAACUUUGCUUUGCUUCAUUUUGUAGCC
...(((((.((((.....))))...((((...((((((((((((......................................))))))))))))...))))...))))). ( -19.26)
>DroEre_CAF1 52957 96 + 1
CCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAACAAAA--------------AAUCCGAAAACUUUGCUUUGCUUCAUUUUGUAGCC
...(((((.((((.....))))...((((...((((((((((((.................--------------.......))))))))))))...))))...))))). ( -19.76)
>DroYak_CAF1 54568 96 + 1
CCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAAA--------------UGUCCCAAAACUUUGCUUUGCUUCAUUUUGUAGCC
...(((((.((((.....))))...((((...((((((((((((......(((........--------------)))....))))))))))))...))))...))))). ( -21.00)
>DroAna_CAF1 52782 88 + 1
CCAGCUGCCAUCUGCAGAAGUUUCUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAA-----------------AUCGAAAACUU-----UGCUUCAUUUUGUAGCC
...(((((.....(((((....)))))......(((((((((((................-----------------.....))))))-----)))))......))))). ( -18.80)
>consensus
CCAGCUGCCAACUGCAGAAGUUUUUGUGACCAAAAGUAAAGUUUGUCAAAACAAAAAAAAA______________AAACCGAAAACUUUGCUUUGCUUCAUUUUGUAGCC
...(((((.....(((((....)))))((...((((((((((((......................................))))))))))))...)).....))))). (-16.16 = -17.00 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:54 2006