Locus 7941

Sequence ID X_DroMel_CAF1
Location 19,814,238 – 19,814,369
Length 131
Max. P 0.998781
window13030 window13031 window13032

overview

Window 0

Location 19,814,238 – 19,814,329
Length 91
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 82.85
Mean single sequence MFE -22.40
Consensus MFE -18.95
Energy contribution -18.73
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.55
Structure conservation index 0.85
SVM decision value 0.41
SVM RNA-class probability 0.723272
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19814238 91 - 22224390
AC--UUGCAAAGUCGGAGGAGGAGACCCGGGCA-AAUAGCUGGGAAUAAAUAAAGUCAAGGUAAGGACCUGCGACAAUCGCACACACACGAUCG
..--.......((((.(((.(....)((.(((.-....))).)).......................))).)))).((((........)))).. ( -21.50)
>DroEre_CAF1 12483 84 - 1
AC--UUGCAAAAC------CGAAGACCCA-GCAAACCAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAUCGCACAUU-UCGAUCG
..--.........------(((((.((((-((......))))))..........(((.((((....))))..))).........))-))).... ( -23.40)
>DroYak_CAF1 12799 88 - 1
ACUCUUGCAAGAG------CGGAGACCCAGGCAAACCAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAUCGCACACACACGAUCG
.((((.((....)------))))).(((((.(......))))))..........(((.((((....))))..))).((((........)))).. ( -22.30)
>consensus
AC__UUGCAAAAC______CGGAGACCCAGGCAAACCAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAUCGCACACACACGAUCG
.....(((.................((((.((......))))))..........(((.((((....))))..)))....)))............ (-18.95 = -18.73 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,814,254 – 19,814,369
Length 115
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -28.14
Consensus MFE -17.34
Energy contribution -17.70
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.62
SVM decision value 0.24
SVM RNA-class probability 0.648668
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19814254 115 + 22224390
AUUGUCGCAGGUCCUUACCUUGACUUUAUUUAUUCCCAGCUAUU-UGCCCGGGUCUCCUCCUCCGACUUUGCAA--GUGCUUGUUGGCAAGGCGAUUGCCUUUAUUUCUCUUAAGAGU
...((((.((((....))))))))...........(((((((((-(((..(((((.........))))).))))--)))...))))).(((((....))))).....(((....))). ( -27.20)
>DroSec_CAF1 20234 92 + 1
AUUGUCGCAGGUCCUCACCUUGACUUUUUUUAUUCCCAGCUAUU-UGCCUGGGUCUCCUC---G----------------------GCAAGGCGAUUGCCUUUAUUUUUCUUAAGAGU
...((((.((((....))))))))..((((((..((((((....-.).))))).......---(----------------------((((.....)))))...........)))))). ( -21.70)
>DroSim_CAF1 17242 99 + 1
AUUGUCGCAGGUCCUCACCUUGACUUUAUUUAUUCCCAGCUAUU-UGCCUGGGUCUCCUC---GGACUU---------------UGGCAAGGCGAUUGCCUUUAUUUUUCUUAAGAGU
...((((.((((....)))))))).......((((........(-((((..(((((....---))))).---------------.)))))(((....)))..............)))) ( -24.20)
>DroEre_CAF1 12498 109 + 1
AUUGUCGCAGGUCCUCACCUUGACUUUAUUUAUUCCCAGCUGGUUUGC-UGGGUCUUCG------GUUUUGCAA--GUGUGUGUUGCCAAGGCGAUUGCCUGUAUUUGUCUUUAGAGU
......((((((..((.((((.............((((((......))-)))).....(------((..((((.--...))))..))))))).))..))))))............... ( -33.30)
>DroYak_CAF1 12815 112 + 1
AUUGUCGCAGGUCCUCACCUUGACUUUAUUUAUUCCCAGCUGGUUUGCCUGGGUCUCCG------CUCUUGCAAGAGUGUGUGUUGCCAAGGCGAUUGGCUGUAUUUUUCUUAAGAGU
...((((.((((....))))))))............((((..(((.((((.((((.(((------((((....)))))).).)..))).)))))))..))))................ ( -34.30)
>consensus
AUUGUCGCAGGUCCUCACCUUGACUUUAUUUAUUCCCAGCUAUU_UGCCUGGGUCUCCUC_____ACUUUGCAA__GUG__UGUUGGCAAGGCGAUUGCCUUUAUUUUUCUUAAGAGU
...((((.((((....))))))))..........((((((......)).))))................................(((((.....))))).................. (-17.34 = -17.70 +   0.36)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,814,254 – 19,814,369
Length 115
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 79.72
Mean single sequence MFE -30.36
Consensus MFE -19.56
Energy contribution -19.56
Covariance contribution 0.00
Combinations/Pair 1.11
Mean z-score -3.37
Structure conservation index 0.64
SVM decision value 3.22
SVM RNA-class probability 0.998781
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19814254 115 - 22224390
ACUCUUAAGAGAAAUAAAGGCAAUCGCCUUGCCAACAAGCAC--UUGCAAAGUCGGAGGAGGAGACCCGGGCA-AAUAGCUGGGAAUAAAUAAAGUCAAGGUAAGGACCUGCGACAAU
.(((((..((........(((((.....))))).....((..--..))....))..)))))....(((((...-.....)))))..........(((.((((....))))..)))... ( -30.30)
>DroSec_CAF1 20234 92 - 1
ACUCUUAAGAAAAAUAAAGGCAAUCGCCUUGC----------------------C---GAGGAGACCCAGGCA-AAUAGCUGGGAAUAAAAAAAGUCAAGGUGAGGACCUGCGACAAU
.(((((..(.......(((((....))))).)----------------------.---.))))).(((((...-.....)))))..........(((.((((....))))..)))... ( -25.70)
>DroSim_CAF1 17242 99 - 1
ACUCUUAAGAAAAAUAAAGGCAAUCGCCUUGCCA---------------AAGUCC---GAGGAGACCCAGGCA-AAUAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAU
.(((((..((......(((((....)))))....---------------...)).---.))))).(((((...-.....)))))..........(((.((((....))))..)))... ( -29.42)
>DroEre_CAF1 12498 109 - 1
ACUCUAAAGACAAAUACAGGCAAUCGCCUUGGCAACACACAC--UUGCAAAAC------CGAAGACCCA-GCAAACCAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAU
................((((...((((((((((........(--((.(.....------.)))).((((-((......))))))..........))))))))))...))))....... ( -34.00)
>DroYak_CAF1 12815 112 - 1
ACUCUUAAGAAAAAUACAGCCAAUCGCCUUGGCAACACACACUCUUGCAAGAG------CGGAGACCCAGGCAAACCAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAU
................(((....((((((((((........((((.((....)------))))).(((((.(......))))))..........))))))))))....)))....... ( -32.40)
>consensus
ACUCUUAAGAAAAAUAAAGGCAAUCGCCUUGCCAACA__CAC__UUGCAAAAU_____GAGGAGACCCAGGCA_AAUAGCUGGGAAUAAAUAAAGUCAAGGUGAGGACCUGCGACAAU
..................(((((.....)))))................................((((.((......))))))..........(((.((((....))))..)))... (-19.56 = -19.56 +   0.00)

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 12:51:22 2006