Locus 1445

Sequence ID 2L_DroMel_CAF1
Location 3,839,887 – 3,840,058
Length 171
Max. P 0.928167
window2351 window2352

overview

Window 1

Location 3,839,887 – 3,839,990
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.78
Mean single sequence MFE -25.94
Consensus MFE -17.00
Energy contribution -16.95
Covariance contribution -0.05
Combinations/Pair 1.23
Mean z-score -2.69
Structure conservation index 0.66
SVM decision value 1.19
SVM RNA-class probability 0.928167
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3839887 103 - 22407834
CAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUACGAGU---ACGAGUA------UAUUAACUAAGUGAAUUGGAUAAUCUCAUUCGUAUUCGUAUUCGCAUUCCC--------
...(((..(((((((........)))))))..)))((((((((((---((((((.------.((((.((((.....)))).))))...))))))))))))))))........-------- ( -33.20)
>DroSec_CAF1 28704 97 - 1
CAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUACGAGU---ACGAGUA------UAUUAACUAAGUGAAUUGGAUAAUCUCAUUCGC------AUUCGCAUUCCC--------
....((..(((((((........)))))))..))(((((.(((((---.(((((.------.((((.((((.....)))).))))...))))).------))))).))))).-------- ( -25.90)
>DroSim_CAF1 28027 97 - 1
CAAUUGAAAACUGUAACAACAAAUGCAGUUGGCAGGAAUACGAGU---ACGAGUA------UAUUAACUAAGUGAAUUGGAUAAUCUCAUUCGC------AUUCGCAUUCCC--------
....((..(((((((........)))))))..))(((((.(((((---.(((((.------.((((.((((.....)))).))))...))))).------))))).))))).-------- ( -26.50)
>DroEre_CAF1 33384 114 - 1
CAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUACGAGCACGACUAAUAUACUCGUAUUAACUAAGUGAAUUGGAUAAUCUCAUUCGC------AUUCGCAUUCCCAUUCGCAU
....((..(((((((........)))))))..))((((((((((.............))))))))......(((((((((((......))))).------))))))....))........ ( -25.02)
>DroYak_CAF1 30157 105 - 1
CAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUACGAUGAGUACGAGUA------UAUUAACUAAGUGAAUUGGAUAAUCUCAUUCGC------AUUCCCAUUCUCA---ACAU
....((..(((((((........)))))))..))(((((.(((((((........------.((((.((((.....)))).)))))))).))).------)))))........---.... ( -20.50)
>DroAna_CAF1 29887 109 - 1
CAAUUGCAGGCUGUAACAACAAAUGCAGCCCGAAGGAAGAGGCCUGCGAGUGAAAUACGAGUACUAACUAAGCGAAUUGGAUAAUCUCAUUCUU------AUUCCCAUUCCGG-----CU
.....((.(((((((........)))))))....((((..((..((.((((((..((....))....((((.....))))......)))))).)------)..))..)))).)-----). ( -24.50)
>consensus
CAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUACGAGU___ACGAGUA______UAUUAACUAAGUGAAUUGGAUAAUCUCAUUCGC______AUUCGCAUUCCC________
....((..(((((((........)))))))..))(((((.(((........(((((....)))))......((((((.((.....)).))))))........))).)))))......... (-17.00 = -16.95 +  -0.05)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,839,950 – 3,840,058
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -20.47
Consensus MFE -20.01
Energy contribution -19.49
Covariance contribution -0.53
Combinations/Pair 1.12
Mean z-score -0.68
Structure conservation index 0.98
SVM decision value 0.07
SVM RNA-class probability 0.569418
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3839950 108 - 22407834
AAUUUACUUUGAUUGAAUAAUGGUCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUA
.......((..((((.......(((.((....))((.(((..(......)..))).)).)))......))))..))(((((((........))))))).......... ( -19.12)
>DroSec_CAF1 28761 108 - 1
AAUUUACUUUGAUUGAAUAAUGGUCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUA
.......((..((((.......(((.((....))((.(((..(......)..))).)).)))......))))..))(((((((........))))))).......... ( -19.12)
>DroSim_CAF1 28084 108 - 1
AAUUUACUUUGAUUGAAUAAUGGUCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGAAAACUGUAACAACAAAUGCAGUUGGCAGGAAUA
.......((..((((.......(((.((....))((.(((..(......)..))).)).)))......))))..))(((((((........))))))).......... ( -19.72)
>DroEre_CAF1 33458 108 - 1
AAUUUACUUUGAUUGAAUAAUGGUCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUA
.......((..((((.......(((.((....))((.(((..(......)..))).)).)))......))))..))(((((((........))))))).......... ( -19.12)
>DroYak_CAF1 30222 108 - 1
AAUUUACUUUGAUUGAAUAAUGGUCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUA
.......((..((((.......(((.((....))((.(((..(......)..))).)).)))......))))..))(((((((........))))))).......... ( -19.12)
>DroAna_CAF1 29956 108 - 1
AAUUUACUUUGAUUGAAUAAUGGCCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGCAGGCUGUAACAACAAAUGCAGCCCGAAGGAAGA
......(((((((((.......(((.((....))((.(((..(......)..))).)).)))......))))....(((((((........))))))))))))..... ( -26.62)
>consensus
AAUUUACUUUGAUUGAAUAAUGGUCGCAUAAUUGGCAACUUGAAUGGAAUUGAGUAGCAGGCAAAACGCAAUUGAAAACUGUAACAACAAAUGCAGUUCGCAGGAAUA
.......((((((((.......(((.((....))((.(((..(......)..))).)).)))......))))))))(((((((........))))))).......... (-20.01 = -19.49 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:50 2006