Locus 7669

Sequence ID 2L_DroMel_CAF1
Location 21,490,423 – 21,490,579
Length 156
Max. P 0.999961
window12319 window12320 window12321 window12322

overview

Window 9

Location 21,490,423 – 21,490,542
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.47
Mean single sequence MFE -31.30
Consensus MFE -14.57
Energy contribution -16.07
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.97
Structure conservation index 0.47
SVM decision value 1.54
SVM RNA-class probability 0.962677
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21490423 119 + 22407834
AAUUACCCAUAUUGCGGGUAAAUAAGUUUUAUUUGUAAAUUCAUAUUCGAUGAUUGGUG-GUUGAAAAAUGCAUUUCUUUGGUAUAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAU
..((((((.......))))))....(((.((((.(.((((.(((.((((((.(....).-))))))..))).)))))...)))).))).((..((((((((....))))))))..))... ( -30.30)
>DroEre_CAF1 171928 116 + 1
-UUUACCCAUAUUAUCGGUAG---AGUUAAAAUGGUAAAUUCAUAUUAGACGAUUGGUAAAUUGAAAAAUACAUUUCUUUGAUGAAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAU
-.....(((..(((((((.((---((((((.((((.....)))).)))).(((((....)))))..........)))))))))))..........((((((....))))))....))).. ( -27.40)
>DroYak_CAF1 159390 104 + 1
---------UUUUAACACCAU---AGUGGGAAUGGAUAAGUUGAAAUCGACGA----UAUAUUGAAAAAUACAUUUCCUUGGUGAAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAU
---------......(((((.---...(((((((.....((((....))))..----..((((....))))))))))).))))).....((..((((((((....))))))))..))... ( -36.20)
>consensus
__UUACCCAUAUUAACGGUAA___AGUUAAAAUGGUAAAUUCAUAUUCGACGAUUGGUA_AUUGAAAAAUACAUUUCUUUGGUGAAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAU
...............................................................((((......))))............((..((((((((....))))))))..))... (-14.57 = -16.07 +   1.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,490,423 – 21,490,542
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 72.47
Mean single sequence MFE -22.70
Consensus MFE -16.67
Energy contribution -16.57
Covariance contribution -0.11
Combinations/Pair 1.14
Mean z-score -2.54
Structure conservation index 0.73
SVM decision value 4.91
SVM RNA-class probability 0.999961
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21490423 119 - 22407834
AUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUAUACCAAAGAAAUGCAUUUUUCAAC-CACCAAUCAUCGAAUAUGAAUUUACAAAUAAAACUUAUUUACCCGCAAUAUGGGUAAUU
.........((((((....))))))....((((..........((((......))))...-......((((.....))))...))))............(((((((.....))))))).. ( -23.10)
>DroEre_CAF1 171928 116 - 1
AUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUUCAUCAAAGAAAUGUAUUUUUCAAUUUACCAAUCGUCUAAUAUGAAUUUACCAUUUUAACU---CUACCGAUAAUAUGGGUAAA-
.........((((((....))))))..((((..((((......))))..))))......((((((..((((.....))))......(((.(((.(.---.....).))).)))))))))- ( -23.30)
>DroYak_CAF1 159390 104 - 1
AUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUUCACCAAGGAAAUGUAUUUUUCAAUAUA----UCGUCGAUUUCAACUUAUCCAUUCCCACU---AUGGUGUUAAAA---------
.........((((((....))))))...........(((((.((..(((((((....))))))----)..))(((........)))..........---.)))))......--------- ( -21.70)
>consensus
AUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUUCACCAAAGAAAUGUAUUUUUCAAU_UACCAAUCGUCGAAUAUGAAUUUACCAUUAAAACU___AUACCGAUAAUAUGGGUAA__
.........((((((....))))))..((((..((((......))))..))))................................................................... (-16.67 = -16.57 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,490,463 – 21,490,579
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.63
Mean single sequence MFE -31.33
Consensus MFE -20.39
Energy contribution -21.12
Covariance contribution 0.73
Combinations/Pair 1.22
Mean z-score -1.97
Structure conservation index 0.65
SVM decision value 0.19
SVM RNA-class probability 0.625618
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21490463 116 + 22407834
UCAUAUUCGAUGAUUGGUG-GUUGAAAAAUGCAUUUCUUUGGUAUAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUAUUGUCCGC---AUUCGCAGGAGAAAAUUAUUUAGAGCU
.......(((((....(((-.(.((((......))))...).)))....))))).((((((....))))))(((((((((..((.(((((---....)).))).))....))))))))). ( -30.60)
>DroEre_CAF1 171964 117 + 1
UCAUAUUAGACGAUUGGUAAAUUGAAAAAUACAUUUCUUUGAUGAAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUUUUGUCCGC---ACUCGCAGGAGGAAAUUAUUUGGAGCU
...(((((((.((...(((..((....)))))...)))))))))...........((((((....))))))((((..(((((((.(((((---....)).))).))))..)))..)))). ( -33.50)
>DroYak_CAF1 159418 116 + 1
UUGAAAUCGACGA----UAUAUUGAAAAAUACAUUUCCUUGGUGAAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUAAUGUCCGCAGCAUUAGUAGAAACAAAUUAUUUGGAGCU
...........((----(.((((....)))).)))(((..(((((..........((((((....))))))(((((..((((((((.....)))))))).)))))...))))).)))... ( -29.90)
>consensus
UCAUAUUCGACGAUUGGUA_AUUGAAAAAUACAUUUCUUUGGUGAAACACAUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUAUUGUCCGC___AUUCGCAGGAGAAAAUUAUUUGGAGCU
..................................((((..(((((......((((((((((....)))))).....((((....)))).........)))).......))))).)))).. (-20.39 = -21.12 +   0.73)

alignment

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secondary structure

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dotplot

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Window 2

Location 21,490,463 – 21,490,579
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.63
Mean single sequence MFE -21.98
Consensus MFE -19.07
Energy contribution -18.97
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -1.23
Structure conservation index 0.87
SVM decision value 0.18
SVM RNA-class probability 0.620523
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21490463 116 - 22407834
AGCUCUAAAUAAUUUUCUCCUGCGAAU---GCGGACAAUAAUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUAUACCAAAGAAAUGCAUUUUUCAAC-CACCAAUCAUCGAAUAUGA
.((..................))((((---(((((......))).....((((((....)))))).......................))))))......-................... ( -20.27)
>DroEre_CAF1 171964 117 - 1
AGCUCCAAAUAAUUUCCUCCUGCGAGU---GCGGACAAAAAUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUUCAUCAAAGAAAUGUAUUUUUCAAUUUACCAAUCGUCUAAUAUGA
.((((((.............)).))))---..((((.............((((((....))))))..((((..((((......))))..))))................))))....... ( -24.62)
>DroYak_CAF1 159418 116 - 1
AGCUCCAAAUAAUUUGUUUCUACUAAUGCUGCGGACAUUAAUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUUCACCAAGGAAAUGUAUUUUUCAAUAUA----UCGUCGAUUUCAA
(((........................)))...(((.............((((((....))))))..((((..((((......))))..))))..........----..)))........ ( -21.06)
>consensus
AGCUCCAAAUAAUUUCCUCCUGCGAAU___GCGGACAAUAAUCCAAAACGGCCCUUUUCAGGGCCACAAUGUGUUUCACCAAAGAAAUGUAUUUUUCAAU_UACCAAUCGUCGAAUAUGA
................................(((......))).....((((((....))))))..((((..((((......))))..))))........................... (-19.07 = -18.97 +  -0.11)

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 12:42:23 2006