Locus 383

Sequence ID 2L_DroMel_CAF1
Location 1,200,069 – 1,200,203
Length 134
Max. P 0.832038
window604 window605 window606

overview

Window 4

Location 1,200,069 – 1,200,163
Length 94
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 82.86
Mean single sequence MFE -23.90
Consensus MFE -16.66
Energy contribution -16.00
Covariance contribution -0.66
Combinations/Pair 1.25
Mean z-score -1.81
Structure conservation index 0.70
SVM decision value 0.16
SVM RNA-class probability 0.614630
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1200069 94 + 22407834
UAUUGAGCGAAGUGUUGUUGUGGGAAAACCCGAAACUUACUUAUCAACCGAACUGGGCUCGUCUUAUCUGAAAUUUAGAUAAGAUUACAACGUA
....((((.(((((..(((.((((....)))).))).))))).....((.....))))))(((((((((((...)))))))))))......... ( -26.70)
>DroSim_CAF1 17134 92 + 1
UAUUGAGCGAAGUGUUGUUGUGGGAAAACCUGAAA--UACUUAUCAGGCGAACUGGGCUCGUCUUAUCUGGAAUUUAGAUAAGAUUUCAACGUA
....((((.(((((((....((((....)))).))--))))).((((.....))))))))((((((((((.....))))))))))......... ( -26.00)
>DroEre_CAF1 16970 86 + 1
UACUGGGCGUAGUGUUGUUGUGGGAAAGUCUGAGG--AACUUAUCAGCUGAACU------GUCUUAUCUGGCAUUUAGAUAAGAUUUCAACGUU
.....((((((((...((((((((....((....)--).)))).))))...)))------((((((((((.....))))))))))....))))) ( -19.00)
>consensus
UAUUGAGCGAAGUGUUGUUGUGGGAAAACCUGAAA__UACUUAUCAGCCGAACUGGGCUCGUCUUAUCUGGAAUUUAGAUAAGAUUUCAACGUA
..((((...(((((......((((....)))).....))))).)))).............(((((((((((...)))))))))))......... (-16.66 = -16.00 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,200,069 – 1,200,163
Length 94
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 82.86
Mean single sequence MFE -19.03
Consensus MFE -12.77
Energy contribution -12.33
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -2.30
Structure conservation index 0.67
SVM decision value 0.72
SVM RNA-class probability 0.832038
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1200069 94 - 22407834
UACGUUGUAAUCUUAUCUAAAUUUCAGAUAAGACGAGCCCAGUUCGGUUGAUAAGUAAGUUUCGGGUUUUCCCACAACAACACUUCGCUCAAUA
..........((((((((.......)))))))).((((..(((...((((....(.......)(((....))).))))...)))..)))).... ( -21.60)
>DroSim_CAF1 17134 92 - 1
UACGUUGAAAUCUUAUCUAAAUUCCAGAUAAGACGAGCCCAGUUCGCCUGAUAAGUA--UUUCAGGUUUUCCCACAACAACACUUCGCUCAAUA
...((((...((((((((.......)))))))).((((...))))((((((......--..)))))).......))))................ ( -20.40)
>DroEre_CAF1 16970 86 - 1
AACGUUGAAAUCUUAUCUAAAUGCCAGAUAAGAC------AGUUCAGCUGAUAAGUU--CCUCAGACUUUCCCACAACAACACUACGCCCAGUA
...((((((.((((((((.......)))))))).------..)))))).((.(((((--.....)))))))....................... ( -15.10)
>consensus
UACGUUGAAAUCUUAUCUAAAUUCCAGAUAAGACGAGCCCAGUUCGGCUGAUAAGUA__UUUCAGGUUUUCCCACAACAACACUUCGCUCAAUA
...((((...((((((((.......))))))))..............((((..........)))).........))))................ (-12.77 = -12.33 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,200,083 – 1,200,203
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.89
Mean single sequence MFE -31.25
Consensus MFE -19.31
Energy contribution -19.87
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -2.24
Structure conservation index 0.62
SVM decision value 0.57
SVM RNA-class probability 0.785922
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1200083 120 + 22407834
UUGUUGUGGGAAAACCCGAAACUUACUUAUCAACCGAACUGGGCUCGUCUUAUCUGAAAUUUAGAUAAGAUUACAACGUAUUCGAAUCAUUUUCCUAUAAAUGGUUUGACAGGAUAGGCU
..(((.((((....)))).)))...((((((..((.....))....(((((((((((...)))))))))))..........(((((((((((......)))))))))))...)))))).. ( -31.00)
>DroSim_CAF1 17148 118 + 1
UUGUUGUGGGAAAACCUGAAA--UACUUAUCAGGCGAACUGGGCUCGUCUUAUCUGGAAUUUAGAUAAGAUUUCAACGUAUUCGAGCCAUUUUCCUAUAAAUGCUAUGAGAGGAUAGGCU
...((((((((((((((((..--......))))).......(((((((((((((((.....)))))))))............)))))).)))))))))))...((((......))))... ( -35.20)
>DroEre_CAF1 16984 112 + 1
UUGUUGUGGGAAAGUCUGAGG--AACUUAUCAGCUGAACU------GUCUUAUCUGGCAUUUAGAUAAGAUUUCAACGUUUUCGAAUCUUUUUCCUAUAAAUGGAAUGACAGAAUAGGGU
...(((((((((((.((((..--......)))))((((..------((((((((((.....))))))))))))))...............)))))))))).................... ( -24.50)
>DroYak_CAF1 16981 118 + 1
UUGUUGUGGGAAAUUCUGAAA--UACUUAUAAGCCCAACUGGGCUCGUCUUAUCUGGAAUUUAGAUAAGAUUUCAGCGUAUUCCAAUCAUUUUCCUAUAAAUGCUAUGACAGCAGAAGGU
(((((((((((.((.(((((.--........(((((....))))).((((((((((.....))))))))))))))).)).))))...(((((......))))).....)))))))..... ( -34.30)
>consensus
UUGUUGUGGGAAAACCUGAAA__UACUUAUCAGCCGAACUGGGCUCGUCUUAUCUGGAAUUUAGAUAAGAUUUCAACGUAUUCGAAUCAUUUUCCUAUAAAUGCUAUGACAGGAUAGGCU
...(((((((((((.........(((...((((.....))))....(((((((((((...)))))))))))......))).........))))))))))).................... (-19.31 = -19.87 +   0.56)

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 09:34:33 2006