Locus 132

Sequence ID X_DroMel_CAF1
Location 521,131 – 521,318
Length 187
Max. P 0.999995
window184 window185 window186 window187 window188

overview

Window 4

Location 521,131 – 521,251
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.67
Mean single sequence MFE -34.45
Consensus MFE -33.72
Energy contribution -34.00
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -2.50
Structure conservation index 0.98
SVM decision value 4.15
SVM RNA-class probability 0.999817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 521131 120 + 22224390
UCACCUCGCUAUUUCCCCAGUUUUCUCUUUUUGCUCUGAAGUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUC
.......(((((((((((((...............)))..).)))))))))((((((((....((((...(((((..(((((...((....)).)))))..))))))))).)))))))). ( -36.26)
>DroSec_CAF1 7341 120 + 1
UCACCUCGCUAUUUCCCCAGUUUUCUCUCUUUGCUCUCAAGUAGAAGUGGCAGUGAAUUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUC
.......((((((((...((......))...((((....))))))))))))((((((......((((...(((((..(((((...((....)).)))))..)))))))))...)))))). ( -30.80)
>DroSim_CAF1 7734 120 + 1
UCACCUCGCUAUUUCCCCAGUUUUCUCUUUUUGCUCUCAAGUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUC
.......(((((((((..((......))....(((....))))))))))))((((((((....((((...(((((..(((((...((....)).)))))..))))))))).)))))))). ( -34.70)
>DroEre_CAF1 7286 119 + 1
UCACCUCGCUAU-UCCCCAGUUUUCUCUUUUUGCUCUCAAGUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUC
.......(((((-(..(((.((................)).))).))))))((((((((....((((...(((((..(((((...((....)).)))))..))))))))).)))))))). ( -31.49)
>DroYak_CAF1 6469 120 + 1
UCACCUCGCCAUUUCCCCAGCUUUCUCUUUUUGCUCUCAAGUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUC
.......(((((((((.((((...........))).....).)))))))))((((((((....((((...(((((..(((((...((....)).)))))..))))))))).)))))))). ( -39.00)
>consensus
UCACCUCGCUAUUUCCCCAGUUUUCUCUUUUUGCUCUCAAGUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUC
.......(((((((((.((((...........))).....).)))))))))((((((((....((((...(((((..(((((...((....)).)))))..))))))))).)))))))). (-33.72 = -34.00 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 521,171 – 521,284
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -35.08
Consensus MFE -34.88
Energy contribution -35.28
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -3.46
Structure conservation index 0.99
SVM decision value 5.87
SVM RNA-class probability 0.999995
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 521171 113 + 22224390
GUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU-------
.(((((((.((((((((((((((.(((((((((((..(((((...((....)).)))))..)))..))))))))....)))))))))).)))).....)))))))........------- ( -36.40)
>DroSec_CAF1 7381 113 + 1
GUAGAAGUGGCAGUGAAUUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU-------
.........((((((((.(((((.(((((((((((..(((((...((....)).)))))..)))..))))))))....))))).)))).))))(((((........)))))..------- ( -29.80)
>DroSim_CAF1 7774 113 + 1
GUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU-------
.(((((((.((((((((((((((.(((((((((((..(((((...((....)).)))))..)))..))))))))....)))))))))).)))).....)))))))........------- ( -36.40)
>DroEre_CAF1 7325 120 + 1
GUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUCUUUUUGUCCCCU
.(((((((.((((((((((((((.(((((((((((..(((((...((....)).)))))..)))..))))))))....)))))))))).)))).....)))))))............... ( -36.40)
>DroYak_CAF1 6509 120 + 1
GUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUCUUUUUGUCCCCC
.(((((((.((((((((((((((.(((((((((((..(((((...((....)).)))))..)))..))))))))....)))))))))).)))).....)))))))............... ( -36.40)
>consensus
GUGGAAGUGGCAGUGAAGUGCGAUAGUUUAGCAUUUGUUUGCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU_______
.(((((((.((((((((((((((.(((((((((((..(((((...((....)).)))))..)))..))))))))....)))))))))).)))).....)))))))............... (-34.88 = -35.28 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 521,171 – 521,284
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.17
Mean single sequence MFE -23.92
Consensus MFE -21.30
Energy contribution -21.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.89
SVM decision value 3.72
SVM RNA-class probability 0.999560
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 521171 113 - 22224390
-------AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGCAAACAAAUGCUAAACUAUCGCACUUCACUGCCACUUCCAC
-------.....((.((((..((((((((...........(((((..........))))).(((((.......))))))))))))).(((.........))).)))).)).......... ( -22.30)
>DroSec_CAF1 7381 113 - 1
-------AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGCAAACAAAUGCUAAACUAUCGCAAUUCACUGCCACUUCUAC
-------.....((.((((..((((((((...........(((((..........))))).(((((.......))))))))))))).(((.........))).)))).)).......... ( -22.80)
>DroSim_CAF1 7774 113 - 1
-------AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGCAAACAAAUGCUAAACUAUCGCACUUCACUGCCACUUCCAC
-------.....((.((((..((((((((...........(((((..........))))).(((((.......))))))))))))).(((.........))).)))).)).......... ( -22.30)
>DroEre_CAF1 7325 120 - 1
AGGGGACAAAAAGAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGCAAACAAAUGCUAAACUAUCGCACUUCACUGCCACUUCCAC
..((((.....((..((((..((((((((...........(((((..........))))).(((((.......))))))))))))).(((.........))).)))))).....)))).. ( -24.80)
>DroYak_CAF1 6509 120 - 1
GGGGGACAAAAAGAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGCAAACAAAUGCUAAACUAUCGCACUUCACUGCCACUUCCAC
(((((.........(((....(((((.((((((....((((...(....)...))))...)))))))))))...)))((((......(((.........)))......)))).))))).. ( -27.40)
>consensus
_______AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGCAAACAAAUGCUAAACUAUCGCACUUCACUGCCACUUCCAC
...............((((..((((((((...........(((((..........))))).(((((.......))))))))))))).(((.........))).))))............. (-21.30 = -21.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 521,211 – 521,318
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.65
Mean single sequence MFE -19.98
Consensus MFE -16.44
Energy contribution -16.84
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.82
SVM decision value 0.96
SVM RNA-class probability 0.889895
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 521211 107 + 22224390
GCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU-------------CCACUGCGUCCCCCGCUUUUCCAUUUUCCUCUUG
((.(((...((((((((((((((((((..((......)))))).))))))))).)))))....))).))....-------------.....(((.....))).................. ( -19.40)
>DroSec_CAF1 7421 107 + 1
GCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU-------------CCACUGCGUCCCCCGCUUUUCCAUUUUCCUCUUG
((.(((...((((((((((((((((((..((......)))))).))))))))).)))))....))).))....-------------.....(((.....))).................. ( -19.40)
>DroSim_CAF1 7814 107 + 1
GCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU-------------CCACUGCGUCCCCCGCUUUUCCAUUUUCCUCUUG
((.(((...((((((((((((((((((..((......)))))).))))))))).)))))....))).))....-------------.....(((.....))).................. ( -19.40)
>DroEre_CAF1 7365 118 + 1
GCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUCUUUUUGUCCCCUG--CGUCCUCUGCGCUCCCCGCUUUUCCAUUUUCCUCCUG
.....((..((((((((((((((((((..((......)))))).))))))))).))))).....................(--(((.....)))).....)).................. ( -21.40)
>DroYak_CAF1 6549 120 + 1
GCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUCUUUUUGUCCCCCGCACGUCCCCUGCAUCCCCCGGUUUUCCAUUUUCCUCUUG
((((((...((((((((((((((((((..((......)))))).))))))))).)))))....)))..............(((.......))).......)))................. ( -20.30)
>consensus
GCCUUGCUUUUGUUGCAAAUGAGUGCGCUAGAUUUCACUCGCAUUUUAUUUGCAAACAAUUUUCAAUGUUUUU_____________CCACUGCGUCCCCCGCUUUUCCAUUUUCCUCUUG
...(((...((((((((((((((((((..((......)))))).))))))))).)))))....))).........................(((.....))).................. (-16.44 = -16.84 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 521,211 – 521,318
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.65
Mean single sequence MFE -24.08
Consensus MFE -18.96
Energy contribution -19.00
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.77
Structure conservation index 0.79
SVM decision value 0.68
SVM RNA-class probability 0.821065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 521211 107 - 22224390
CAAGAGGAAAAUGGAAAAGCGGGGGACGCAGUGG-------------AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGC
...(((.....(....).(((..(((..(((((.-------------.....)))))....(..((((((.......))))))..)..)))..))).))).(((((.......))))).. ( -22.70)
>DroSec_CAF1 7421 107 - 1
CAAGAGGAAAAUGGAAAAGCGGGGGACGCAGUGG-------------AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGC
...(((.....(....).(((..(((..(((((.-------------.....)))))....(..((((((.......))))))..)..)))..))).))).(((((.......))))).. ( -22.70)
>DroSim_CAF1 7814 107 - 1
CAAGAGGAAAAUGGAAAAGCGGGGGACGCAGUGG-------------AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGC
...(((.....(....).(((..(((..(((((.-------------.....)))))....(..((((((.......))))))..)..)))..))).))).(((((.......))))).. ( -22.70)
>DroEre_CAF1 7365 118 - 1
CAGGAGGAAAAUGGAAAAGCGGGGAGCGCAGAGGACG--CAGGGGACAAAAAGAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGC
..................(((.....))).(((..((--(.(....)....(((((.....(..((((((.......))))))..)))))).)))..))).(((((.......))))).. ( -26.40)
>DroYak_CAF1 6549 120 - 1
CAAGAGGAAAAUGGAAAACCGGGGGAUGCAGGGGACGUGCGGGGGACAAAAAGAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGC
...........(((....))).....((((((.((.((((((....)....(((((.....(..((((((.......))))))..))))))..))))))).))))))............. ( -25.90)
>consensus
CAAGAGGAAAAUGGAAAAGCGGGGGACGCAGUGG_____________AAAAACAUUGAAAAUUGUUUGCAAAUAAAAUGCGAGUGAAAUCUAGCGCACUCAUUUGCAACAAAAGCAAGGC
...(((.....((((...(((.....)))................................(..((((((.......))))))..)..)))).....))).(((((.......))))).. (-18.96 = -19.00 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:43 2006