Locus 5616

Sequence ID X_DroMel_CAF1
Location 14,481,406 – 14,481,595
Length 189
Max. P 0.996271
window9126 window9127 window9128

overview

Window 6

Location 14,481,406 – 14,481,503
Length 97
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 84.69
Mean single sequence MFE -27.34
Consensus MFE -23.04
Energy contribution -23.04
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.84
SVM decision value 0.84
SVM RNA-class probability 0.864005
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14481406 97 + 22224390
ACAAUUAAAAUGACAACGGAGUAGAUGGCGAGGCGAAAGGAUUUUUGCACGUUUCGCUUUCUACUCAUUGCGCCCC--------AUGUCCC----CUCGCC-CAAUCCAU
..................(((((((.(((((((((..............))))))))).)))))))((((.((...--------.......----...)).-)))).... ( -24.06)
>DroSec_CAF1 6756 106 + 1
ACAAUUAAAAUGACAACGGAGUAGAUGGCGAGGCGAAAGGAUUUUUGCACGUUUCGCUUUCUACUCAUGGCGCCCUCGUCCUCAUUGUCCC----CUCCCCACAAUCCAU
...........(((((.((((((((.(((((((((..............))))))))).)))))))..((((....))))..).)))))..----............... ( -29.24)
>DroSim_CAF1 13210 106 + 1
ACAAUUAAAAUGACAACGGAGUAGAUGGCGAGGCGAAAGGAUUUUUGCACGUUUCGCUUUCUACUCAUGGCGCCCUCGUCCUCAUUGUCCC----CUCCCCGCAAUCCAU
...........(((((.((((((((.(((((((((..............))))))))).)))))))..((((....))))..).)))))..----............... ( -29.24)
>DroEre_CAF1 5108 83 + 1
ACAAUUAAAAUGACAACGGAGUAGAUGGCGAGGCGAAAGGAUUUUUGCACGUUUCGCUUUCUACUCAUUG---------------------------CCACACAAUCCAU
..........((.(((..(((((((.(((((((((..............))))))))).))))))).)))---------------------------.)).......... ( -23.94)
>DroYak_CAF1 10042 105 + 1
ACAAUUAAAAUGACAACGGAGUAGAUGGCGAGGCGAAAGGAUUUUUGCACGUUUCGCUUUCUACUCAUUGGGACCCCG----C-AUGUCCCCCUCCUCCGCACAAUCCAU
................(((((((((.(((((((((..............))))))))).)))))))...(((((....----.-..))))).......)).......... ( -30.24)
>consensus
ACAAUUAAAAUGACAACGGAGUAGAUGGCGAGGCGAAAGGAUUUUUGCACGUUUCGCUUUCUACUCAUUGCGCCCCCG____C_AUGUCCC____CUCCCCACAAUCCAU
..................(((((((.(((((((((..............))))))))).)))))))............................................ (-23.04 = -23.04 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,481,503 – 14,481,595
Length 92
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 88.61
Mean single sequence MFE -18.03
Consensus MFE -13.28
Energy contribution -13.79
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.74
SVM decision value 0.75
SVM RNA-class probability 0.841998
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14481503 92 + 22224390
UCAUCCUUAUGCCAGUGA--AAGAAAAAAUACACGAG----------UGAAAAAAAAAUGGGAA-AAAUUCAUGAAAUGUUACUGAUGAAAACUGACAUAAGGCG
....(((((((.((((..--...........((..((----------(((.......(((((..-...)))))......)))))..))...)))).))))))).. ( -15.41)
>DroSec_CAF1 6862 91 + 1
UCAUCCUUAUGCCAGUGG--AAGGUAAAAUCCACGAG----------UGAAAA-AAAAUGGGAA-AAAUUCAUGAAAUGUUACUGAUGAAAACUGACAUAAGGCG
....(((((((.((((((--(........))))).((----------(((...-...(((((..-...)))))......))))).........)).))))))).. ( -20.10)
>DroSim_CAF1 13316 91 + 1
UCAUCCUUAUGCCAGUGG--AAGAAAAAAUCCACGAG----------UGAAAA-AAAAUGGGAA-AAAUUCAUGAAAUGUUACUGAUGAAAACUGACAUAAGGCG
....(((((((.((((((--(........))))).((----------(((...-...(((((..-...)))))......))))).........)).))))))).. ( -20.10)
>DroYak_CAF1 10147 103 + 1
UCAUCCUUAUCCCAGUGGGGAAGGAAAAGUCCACGAGUGCAAAAAAA-AAAAA-AAAAUGGGAAAAAAUUCAUGAAAUGUUACUGAUGAAAACUGACAUAAGGCG
....(((((((((((((((..........)))))(....).......-.....-....))))).....(((((.(........).)))))........))))).. ( -16.50)
>consensus
UCAUCCUUAUGCCAGUGG__AAGAAAAAAUCCACGAG__________UGAAAA_AAAAUGGGAA_AAAUUCAUGAAAUGUUACUGAUGAAAACUGACAUAAGGCG
....(((((((.((((.............((((.........................))))......(((((.(........).))))).)))).))))))).. (-13.28 = -13.79 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,481,503 – 14,481,595
Length 92
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 88.61
Mean single sequence MFE -19.98
Consensus MFE -17.48
Energy contribution -17.98
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -3.29
Structure conservation index 0.87
SVM decision value 2.68
SVM RNA-class probability 0.996271
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14481503 92 - 22224390
CGCCUUAUGUCAGUUUUCAUCAGUAACAUUUCAUGAAUUU-UUCCCAUUUUUUUUUCA----------CUCGUGUAUUUUUUCUU--UCACUGGCAUAAGGAUGA
..((((((((((((.(((((.((......)).)))))...-................(----------(....))..........--..)))))))))))).... ( -18.30)
>DroSec_CAF1 6862 91 - 1
CGCCUUAUGUCAGUUUUCAUCAGUAACAUUUCAUGAAUUU-UUCCCAUUUU-UUUUCA----------CUCGUGGAUUUUACCUU--CCACUGGCAUAAGGAUGA
..((((((((((...(((((.((......)).)))))...-..........-......----------...(((((........)--)))))))))))))).... ( -22.40)
>DroSim_CAF1 13316 91 - 1
CGCCUUAUGUCAGUUUUCAUCAGUAACAUUUCAUGAAUUU-UUCCCAUUUU-UUUUCA----------CUCGUGGAUUUUUUCUU--CCACUGGCAUAAGGAUGA
..((((((((((...(((((.((......)).)))))...-..........-......----------...(((((........)--)))))))))))))).... ( -22.40)
>DroYak_CAF1 10147 103 - 1
CGCCUUAUGUCAGUUUUCAUCAGUAACAUUUCAUGAAUUUUUUCCCAUUUU-UUUUU-UUUUUUUGCACUCGUGGACUUUUCCUUCCCCACUGGGAUAAGGAUGA
..((((((.(((((.(((((.((......)).)))))..............-.....-.............(.(((........))).)))))).)))))).... ( -16.80)
>consensus
CGCCUUAUGUCAGUUUUCAUCAGUAACAUUUCAUGAAUUU_UUCCCAUUUU_UUUUCA__________CUCGUGGAUUUUUCCUU__CCACUGGCAUAAGGAUGA
..((((((((((((...............(((((((.................................))))))).............)))))))))))).... (-17.48 = -17.98 +   0.50)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:27 2006