Locus 8434

Sequence ID 3L_DroMel_CAF1
Location 22,150,340 – 22,150,469
Length 129
Max. P 0.999104
window13791 window13792 window13793

overview

Window 1

Location 22,150,340 – 22,150,443
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 93.79
Mean single sequence MFE -25.97
Consensus MFE -23.59
Energy contribution -23.48
Covariance contribution -0.11
Combinations/Pair 1.04
Mean z-score -2.69
Structure conservation index 0.91
SVM decision value 3.37
SVM RNA-class probability 0.999104
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22150340 103 + 23771897
UCUGGGGAGAAACCAUAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCAAAAGCAGUUGCACCUUGAGCCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAA
..(((((((........(((((((....))))))).(((((((((.....)))))))))......(((....)))......)))))))............... ( -25.30)
>DroSec_CAF1 9779 103 + 1
UCUGGGGAGAAACCAUAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCAAAAGCAGUUGCACCUUGAGCCCAAUGGCCUUUACCUUUCUACCAUAAAUAAAUCAA
..(((.......))).....((((((((...((((.(((((((((.....)))))))))..))))(((....)))..................)))))))).. ( -23.30)
>DroSim_CAF1 9621 103 + 1
UCUGGGGAGAAACCAUAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCAAAAGCAGUUGCACCUUGAGCCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAA
..(((((((........(((((((....))))))).(((((((((.....)))))))))......(((....)))......)))))))............... ( -25.30)
>DroEre_CAF1 9666 103 + 1
UCUGGGGAGAAACCAUAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCGAAAGCAGUUGCACCUUGAGCCAAAUGGCCUUUGCCUUCGUACCAUAAAUAAAUCAA
..(((.......))).....((((((((...((((.((((((((.(....)))))))))..))))(((....)))..................)))))))).. ( -24.70)
>DroYak_CAF1 9375 103 + 1
UCUGGGGAGAAACCAUAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCAAAAGCAGUUGCACCUUGAGCCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAA
..(((((((........(((((((....))))))).(((((((((.....)))))))))......(((....)))......)))))))............... ( -25.30)
>DroAna_CAF1 8718 99 + 1
UCGGAGGAGAAACCUCAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCGGAGGCAGUUGCACCUUGAGCCGGCCGGCCUUUGCCUUC----CAUAAAUAAAUCAA
...((((.....))))....((((((((..(((((.((((((((((...))))))))))..)))))..((..(((....)))..)----)...)))))))).. ( -31.90)
>consensus
UCUGGGGAGAAACCAUAUUAGAUUUGUUAAUUUAAAUGCAAUUGCCAAAAGCAGUUGCACCUUGAGCCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAA
..(((.......))).....((((((((...((((.(((((((((.....)))))))))..))))(((....)))..................)))))))).. (-23.59 = -23.48 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 22,150,340 – 22,150,443
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 93.79
Mean single sequence MFE -25.73
Consensus MFE -22.04
Energy contribution -22.90
Covariance contribution 0.86
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.86
SVM decision value 0.44
SVM RNA-class probability 0.736220
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22150340 103 - 23771897
UUGAUUUAUUUAUGGUAGGAAGGCAAAGGCCAUUUGGCUCAAGGUGCAACUGCUUUUGGCAAUUGCAUUUAAAUUAACAAAUCUAAUAUGGUUUCUCCCCAGA
............(((..(((((.((..((((....))))..((((((((.(((.....))).))))))))..................)).)))))..))).. ( -27.10)
>DroSec_CAF1 9779 103 - 1
UUGAUUUAUUUAUGGUAGAAAGGUAAAGGCCAUUGGGCUCAAGGUGCAACUGCUUUUGGCAAUUGCAUUUAAAUUAACAAAUCUAAUAUGGUUUCUCCCCAGA
....(((((.....)))))..(((....))).(((((....((((((((.(((.....))).))))))))........(((((......)))))...))))). ( -21.60)
>DroSim_CAF1 9621 103 - 1
UUGAUUUAUUUAUGGUAGGAAGGCAAAGGCCAUUUGGCUCAAGGUGCAACUGCUUUUGGCAAUUGCAUUUAAAUUAACAAAUCUAAUAUGGUUUCUCCCCAGA
............(((..(((((.((..((((....))))..((((((((.(((.....))).))))))))..................)).)))))..))).. ( -27.10)
>DroEre_CAF1 9666 103 - 1
UUGAUUUAUUUAUGGUACGAAGGCAAAGGCCAUUUGGCUCAAGGUGCAACUGCUUUCGGCAAUUGCAUUUAAAUUAACAAAUCUAAUAUGGUUUCUCCCCAGA
............(((...((((.((..((((....))))..((((((((.(((.....))).))))))))..................)).))))...))).. ( -23.40)
>DroYak_CAF1 9375 103 - 1
UUGAUUUAUUUAUGGUAGGAAGGCAAAGGCCAUUUGGCUCAAGGUGCAACUGCUUUUGGCAAUUGCAUUUAAAUUAACAAAUCUAAUAUGGUUUCUCCCCAGA
............(((..(((((.((..((((....))))..((((((((.(((.....))).))))))))..................)).)))))..))).. ( -27.10)
>DroAna_CAF1 8718 99 - 1
UUGAUUUAUUUAUG----GAAGGCAAAGGCCGGCCGGCUCAAGGUGCAACUGCCUCCGGCAAUUGCAUUUAAAUUAACAAAUCUAAUGAGGUUUCUCCUCCGA
..(((((.....((----(..(((....)))..))).....((((((((.((((...)))).))))))))........)))))....((((.....))))... ( -28.10)
>consensus
UUGAUUUAUUUAUGGUAGGAAGGCAAAGGCCAUUUGGCUCAAGGUGCAACUGCUUUUGGCAAUUGCAUUUAAAUUAACAAAUCUAAUAUGGUUUCUCCCCAGA
............(((..(((((.((..((((....))))..((((((((.(((.....))).))))))))..................)).)))))..))).. (-22.04 = -22.90 +   0.86)

alignment

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secondary structure

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dotplot

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Window 3

Location 22,150,374 – 22,150,469
Length 95
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 81.20
Mean single sequence MFE -18.95
Consensus MFE -13.15
Energy contribution -13.27
Covariance contribution 0.11
Combinations/Pair 1.13
Mean z-score -1.80
Structure conservation index 0.69
SVM decision value 0.51
SVM RNA-class probability 0.764865
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22150374 95 + 23771897
AAUGCAAUUGCCAAAAGCAGUUGCACCUUGAG-----------CCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAAAUUAAUGUCAAUUGCACUGAAAACAA--------
..(((((((((.....)))))))))..(((((-----------((....)))..............(((.(((.......))).)))))))...............-------- ( -16.10)
>DroSim_CAF1 9655 97 + 1
AAUGCAAUUGCCAAAAGCAGUUGCACCUUGAG-----------CCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAAAUUAAUGUCAAUUGCACCGACAACAAC------A
..(((((((((.....)))))))))..(((.(-----------((....))).................................((((.........)))).))).------. ( -18.10)
>DroEre_CAF1 9700 100 + 1
AAUGCAAUUGCCGAAAGCAGUUGCACCUUGAG-----------CCAAAUGGCCUUUGCCUUCGUACCAUAAAUAAAUCAAAUUAAUGUCAAUUGCACCGAACACAACA---ACA
..((((((((.((((.((((..((...(((..-----------.)))...))..)))).))))...(((.(((.......))).))).))))))))............---... ( -17.50)
>DroYak_CAF1 9409 99 + 1
AAUGCAAUUGCCAAAAGCAGUUGCACCUUGAG-----------CCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAAAUUAAUGUCAAUUGCACCGAAAACAACA---AC-
..(((((((((.....)))))))))..(((((-----------((....)))..............(((.(((.......))).))))))).................---..- ( -16.10)
>DroAna_CAF1 8752 92 + 1
AAUGCAAUUGCCGGAGGCAGUUGCACCUUGAG-----------CCGGCCGGCCUUUGCCUUC----CAUAAAUAAAUCAAAUUAGUGUCAAUUGCACGAACAACAAG-------
..((((((((((...)))))))))).((((..-----------..((..(((....)))..)----).................((((.....))))......))))------- ( -25.40)
>DroPer_CAF1 32338 107 + 1
CCAGCAAAUCCUGGAAGCACUUGCACCUUGAGGAGCUAAAAUGGCCAAUGGCCUUUGCCAUC-UGCAAUAAAUAAAUCAAAUUAAUGUCAAUUGCC---ACAACAAA-UGA--A
((((......))))..(((.(((.((.((((.((.........((..(((((....))))).-.))..........))...)))).))))).))).---........-...--. ( -20.51)
>consensus
AAUGCAAUUGCCAAAAGCAGUUGCACCUUGAG___________CCAAAUGGCCUUUGCCUUCCUACCAUAAAUAAAUCAAAUUAAUGUCAAUUGCACCGAAAACAAC_______
..((((((((.((...((....)).........................(((....)))..........................)).)))))))).................. (-13.15 = -13.27 +   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 13:15:16 2006