Locus 7970

Sequence ID 3L_DroMel_CAF1
Location 21,100,057 – 21,100,212
Length 155
Max. P 0.818784
window13009 window13010 window13011

overview

Window 9

Location 21,100,057 – 21,100,177
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.41
Mean single sequence MFE -22.88
Consensus MFE -18.16
Energy contribution -19.20
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.79
SVM decision value 0.32
SVM RNA-class probability 0.686047
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21100057 120 - 23771897
CUAUAAAUGUGGGCCGAAAAAUGGGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAACACACAAUGAGUUAAUUUUUUGAUUAAAUCUCGCGCUACC
...........((((((...((((....(((((((..........)))))))....))))..((((..((.((((((...((.....))..)))))).))..))))....))).)))... ( -23.80)
>DroSec_CAF1 150379 120 - 1
CUAUAAAAAUUGGCCGAAAAAUGAGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAACACACAAUGAGUUAAUUUUUUGAUUAAAUCUCGCGCUACC
..........(((((((...((((....(((((((..........)))))))....))))..((((..((.((((((...((.....))..)))))).))..))))....))).)))).. ( -25.30)
>DroSim_CAF1 57851 120 - 1
CUAUAAAAAUUGGCCGAAAAAUGAGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAACACACAAUGAGUUAAUUUUUUGAUUAAAUCUCGCGCUACC
..........(((((((...((((....(((((((..........)))))))....))))..((((..((.((((((...((.....))..)))))).))..))))....))).)))).. ( -25.30)
>DroEre_CAF1 72550 119 - 1
CUAUAUAGAUUGGCCGAAAAAAUGGAAAGCGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAACACACAACGAGUUAAUU-UUUGAUUAAAUCUCCCGCUACC
..........((((.......((((...(((((((..........)))))))....))))..........((((((((((...((.....))...))-))))))))........)))).. ( -20.30)
>DroYak_CAF1 44527 119 - 1
CCAUAUAAAUUGGGCGAAAAAAUGGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAACACACAAUGAGUUAAUU-UUUGAUAAAAUCUCCUGCUACC
(((.......)))..........((((.(((((((..........)))))))...((((....((((((...(((..........)))...))))))-..))))......))))...... ( -19.70)
>consensus
CUAUAAAAAUUGGCCGAAAAAUGGGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAACACACAAUGAGUUAAUUUUUUGAUUAAAUCUCGCGCUACC
..........(((((((...........(((((((..........)))))))..........((((..((.((((((...((.....))..)))))).))..))))....))).)))).. (-18.16 = -19.20 +   1.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,100,097 – 21,100,212
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.26
Mean single sequence MFE -28.30
Consensus MFE -19.98
Energy contribution -21.02
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.46
Structure conservation index 0.71
SVM decision value 0.67
SVM RNA-class probability 0.818784
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21100097 115 + 23771897
UUUUUAAUUAUUCAAUUAUUAUGACUUUACGGCUGUUUGCCUUGGCAGCCGUUUCCCCAUUUUUCGGCCCACAUUUAUAGGUCCG----ACUCAUUCG-GGGCGUGUUUUAUCAUAGCCG
..................((((((....(((((((((......)))))))))..((((.....((((.((.........)).)))----).......)-))).........))))))... ( -29.30)
>DroSec_CAF1 150419 115 + 1
UUUUUAAUUAUUCAAUUAUUAUGACUUUACGGCUGUUUGCCUUGGCAGCCGUUUCCUCAUUUUUCGGCCAAUUUUUAUAGGUCCG----ACUUAUUCG-GGGCGUGUUUUAUCAUAGCCG
....................((((....(((((((((......)))))))))....))))....((((...........(.((((----(.....)))-)).)(((......))).)))) ( -29.10)
>DroSim_CAF1 57891 115 + 1
UUUUUAAUUAUUCAAUUAUUAUGACUUUACGGCUGUUUGCCUUGGCAGCCGUUUCCUCAUUUUUCGGCCAAUUUUUAUAGGUCCG----ACUCAUUCG-GGGCGUGUUUUAUCAUAGCCG
....................((((....(((((((((......)))))))))....))))....((((...........(.((((----(.....)))-)).)(((......))).)))) ( -29.10)
>DroEre_CAF1 72589 120 + 1
UUUUUAAUUAUUCAAUUAUUAUGACUUUACGGCUGUUUGCCUUGGCAGCCGCUUUCCAUUUUUUCGGCCAAUCUAUAUAGGUACAUGGUACAUAUUCAUGGGCGUGUUUUAUCAUAGCCG
..................((((((.....((((((((......))))))))...............(((.((((....)))).(((((.......))))))))........))))))... ( -25.80)
>DroYak_CAF1 44566 114 + 1
UUUUUAAUUAUUCAAUUAUUAUGACUUUACGGCUGUUUGCCUUGGCAGCCGUUUCCCAUUUUUUCGCCCAAUUUAUAUGGGCCCG----ACUCAUU--UAGGCGGAUUUUUUCAUAGCCG
....................((((....(((((((((......))))))))).............(((((.......)))))...----..)))).--..(((.((.....))...))). ( -28.20)
>consensus
UUUUUAAUUAUUCAAUUAUUAUGACUUUACGGCUGUUUGCCUUGGCAGCCGUUUCCCCAUUUUUCGGCCAAUUUUUAUAGGUCCG____ACUCAUUCG_GGGCGUGUUUUAUCAUAGCCG
..................((((((....(((((((((......)))))))))..............(((.......((((((.......)))))).....)))........))))))... (-19.98 = -21.02 +   1.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,100,097 – 21,100,212
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.26
Mean single sequence MFE -27.08
Consensus MFE -18.34
Energy contribution -18.58
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -2.62
Structure conservation index 0.68
SVM decision value 0.41
SVM RNA-class probability 0.725730
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21100097 115 - 23771897
CGGCUAUGAUAAAACACGCCC-CGAAUGAGU----CGGACCUAUAAAUGUGGGCCGAAAAAUGGGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAA
....((((((........(((-((......(----(((.(((((....)))))))))....)))))..(((((((..........)))))))...))))))................... ( -34.40)
>DroSec_CAF1 150419 115 - 1
CGGCUAUGAUAAAACACGCCC-CGAAUAAGU----CGGACCUAUAAAAAUUGGCCGAAAAAUGAGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAA
....((((((..........(-(..((...(----(((.((..........))))))...))..))..(((((((..........)))))))...))))))................... ( -25.20)
>DroSim_CAF1 57891 115 - 1
CGGCUAUGAUAAAACACGCCC-CGAAUGAGU----CGGACCUAUAAAAAUUGGCCGAAAAAUGAGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAA
....((((((..........(-(..((...(----(((.((..........))))))...))..))..(((((((..........)))))))...))))))................... ( -26.30)
>DroEre_CAF1 72589 120 - 1
CGGCUAUGAUAAAACACGCCCAUGAAUAUGUACCAUGUACCUAUAUAGAUUGGCCGAAAAAAUGGAAAGCGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAA
((((((...........(..((((.........))))..)..........)))))).....((((...(((((((..........)))))))....)))).................... ( -22.50)
>DroYak_CAF1 44566 114 - 1
CGGCUAUGAAAAAAUCCGCCUA--AAUGAGU----CGGGCCCAUAUAAAUUGGGCGAAAAAAUGGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAA
.((((..........(((.((.--....)).----)))(((((.......))))).............(((((((..........)))))))..))))...................... ( -27.00)
>consensus
CGGCUAUGAUAAAACACGCCC_CGAAUGAGU____CGGACCUAUAAAAAUUGGCCGAAAAAUGGGGAAACGGCUGCCAAGGCAAACAGCCGUAAAGUCAUAAUAAUUGAAUAAUUAAAAA
(((((............(((...............(((.((..........)))))........(....))))(((....)))...))))).....(((.......)))........... (-18.34 = -18.58 +   0.24)

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 13:02:31 2006