Locus 7796

Sequence ID 3L_DroMel_CAF1
Location 20,824,427 – 20,824,568
Length 141
Max. P 0.964379
window12685 window12686 window12687 window12688

overview

Window 5

Location 20,824,427 – 20,824,544
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 96.01
Mean single sequence MFE -33.50
Consensus MFE -32.31
Energy contribution -32.53
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -2.44
Structure conservation index 0.96
SVM decision value 1.55
SVM RNA-class probability 0.963085
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20824427 117 + 23771897
UGCUCUGCGGUUGAGCCAACGUGUUGGUUAGUUUGACCGGAAUGUGUGGAAAUUGGUUAGUAUUAUAGGACAUUCCAUUGGACAAUCCAAUGGAAACCUAAUUUAAUUUUGCAAAUU
.((..(.((((..(((.(((......))).)))..)))).)..))(..(((..((((....))))((((...(((((((((.....))))))))).))))......)))..)..... ( -33.70)
>DroSec_CAF1 80695 117 + 1
UGCUCUGUGGUUGAGCAAACGGGUUGGUGAGUUUGACCGGAAUGUGUGGAAAUUGGUUAGUAUUUUAGGAUAUUCCAUUGGACAAUCCAAUGGGAACCUAAUUUAAUUUUGCAAAUU
(((((.......)))))..(.(((..(.....)..))).)....((..(((...((((((((((....))))(((((((((.....)))))))))..))))))...)))..)).... ( -33.50)
>DroSim_CAF1 80653 117 + 1
UGCUCUGUGGUUGAGCAAACGGGUUGGUUAGUUUGACCGGAAUGUGUGGAAAUUGGUUAGUAUUUUAGGACAUUCCAUUGGACAAUCCAAUGGGAACCUAAUUUAAUUUUGCAAAUU
(((((.......)))))..(.(((..(.....)..))).)....((..((.....(((((....(((((...(((((((((.....))))))))).))))).)))))))..)).... ( -33.30)
>consensus
UGCUCUGUGGUUGAGCAAACGGGUUGGUUAGUUUGACCGGAAUGUGUGGAAAUUGGUUAGUAUUUUAGGACAUUCCAUUGGACAAUCCAAUGGGAACCUAAUUUAAUUUUGCAAAUU
.((..(.((((..(((.(((......))).)))..)))).)..))(..((.....(((((....(((((...(((((((((.....))))))))).))))).)))))))..)..... (-32.31 = -32.53 +   0.23)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,824,427 – 20,824,544
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 96.01
Mean single sequence MFE -24.37
Consensus MFE -20.87
Energy contribution -21.20
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.15
Structure conservation index 0.86
SVM decision value 1.09
SVM RNA-class probability 0.913822
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20824427 117 - 23771897
AAUUUGCAAAAUUAAAUUAGGUUUCCAUUGGAUUGUCCAAUGGAAUGUCCUAUAAUACUAACCAAUUUCCACACAUUCCGGUCAAACUAACCAACACGUUGGCUCAACCGCAGAGCA
..(((((..........((((.(((((((((.....)))))))))...))))...........................(((..(.(((((......))))).)..))))))))... ( -29.20)
>DroSec_CAF1 80695 117 - 1
AAUUUGCAAAAUUAAAUUAGGUUCCCAUUGGAUUGUCCAAUGGAAUAUCCUAAAAUACUAACCAAUUUCCACACAUUCCGGUCAAACUCACCAACCCGUUUGCUCAACCACAGAGCA
................(((((...(((((((.....))))))).....)))))..........................(((.......)))........(((((.......))))) ( -21.90)
>DroSim_CAF1 80653 117 - 1
AAUUUGCAAAAUUAAAUUAGGUUCCCAUUGGAUUGUCCAAUGGAAUGUCCUAAAAUACUAACCAAUUUCCACACAUUCCGGUCAAACUAACCAACCCGUUUGCUCAACCACAGAGCA
................(((((...(((((((.....))))))).....)))))..........................(((.......)))........(((((.......))))) ( -22.00)
>consensus
AAUUUGCAAAAUUAAAUUAGGUUCCCAUUGGAUUGUCCAAUGGAAUGUCCUAAAAUACUAACCAAUUUCCACACAUUCCGGUCAAACUAACCAACCCGUUUGCUCAACCACAGAGCA
................(((((...(((((((.....))))))).....)))))..........................(((.......))).........((((.......)))). (-20.87 = -21.20 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,824,464 – 20,824,568
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 96.15
Mean single sequence MFE -25.73
Consensus MFE -23.72
Energy contribution -23.83
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.87
Structure conservation index 0.92
SVM decision value 1.57
SVM RNA-class probability 0.964379
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20824464 104 + 23771897
CGGAAUGUGUGGAAAUUGGUUAGUAUUAUAGGACAUUCCAUUGGACAAUCCAAUGGAAACCUAAUUUAAUUUUGCAAAUUUAAAUGCAAUUAAUUACAAUUCAU
..((((.(((((................((((...(((((((((.....))))))))).))))........(((((........)))))....))))))))).. ( -25.00)
>DroSec_CAF1 80732 104 + 1
CGGAAUGUGUGGAAAUUGGUUAGUAUUUUAGGAUAUUCCAUUGGACAAUCCAAUGGGAACCUAAUUUAAUUUUGCAAAUUUAAAUGCAAUUAAUAUCGAUUCAU
....(((.((.((.(((((((..((..(((((...(((((((((.....))))))))).)))))..)).....(((........)))))))))).)).)).))) ( -26.10)
>DroSim_CAF1 80690 104 + 1
CGGAAUGUGUGGAAAUUGGUUAGUAUUUUAGGACAUUCCAUUGGACAAUCCAAUGGGAACCUAAUUUAAUUUUGCAAAUUUAAAUGCAAUUAAUAUCGAUUCAU
....(((.((.((.(((((((..((..(((((...(((((((((.....))))))))).)))))..)).....(((........)))))))))).)).)).))) ( -26.10)
>consensus
CGGAAUGUGUGGAAAUUGGUUAGUAUUUUAGGACAUUCCAUUGGACAAUCCAAUGGGAACCUAAUUUAAUUUUGCAAAUUUAAAUGCAAUUAAUAUCGAUUCAU
.....(((((..(((((.((...((..(((((...(((((((((.....))))))))).)))))..)).....)).)))))..)))))................ (-23.72 = -23.83 +   0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,824,464 – 20,824,568
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 96.15
Mean single sequence MFE -21.90
Consensus MFE -19.00
Energy contribution -19.33
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.14
Structure conservation index 0.87
SVM decision value 1.19
SVM RNA-class probability 0.928069
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20824464 104 - 23771897
AUGAAUUGUAAUUAAUUGCAUUUAAAUUUGCAAAAUUAAAUUAGGUUUCCAUUGGAUUGUCCAAUGGAAUGUCCUAUAAUACUAACCAAUUUCCACACAUUCCG
..(((((((((((..(((((........))))))))))...((((.(((((((((.....)))))))))...))))..........))))))............ ( -24.90)
>DroSec_CAF1 80732 104 - 1
AUGAAUCGAUAUUAAUUGCAUUUAAAUUUGCAAAAUUAAAUUAGGUUCCCAUUGGAUUGUCCAAUGGAAUAUCCUAAAAUACUAACCAAUUUCCACACAUUCCG
..((((.(.......(((((........))))).......(((((...(((((((.....))))))).....)))))....................))))).. ( -20.00)
>DroSim_CAF1 80690 104 - 1
AUGAAUCGAUAUUAAUUGCAUUUAAAUUUGCAAAAUUAAAUUAGGUUCCCAUUGGAUUGUCCAAUGGAAUGUCCUAAAAUACUAACCAAUUUCCACACAUUCCG
..(((((....(((((((((........))))..)))))....)))))..(((((.....)))))(((((((....((((........))))....))))))). ( -20.80)
>consensus
AUGAAUCGAUAUUAAUUGCAUUUAAAUUUGCAAAAUUAAAUUAGGUUCCCAUUGGAUUGUCCAAUGGAAUGUCCUAAAAUACUAACCAAUUUCCACACAUUCCG
..((((.........(((((........))))).......(((((...(((((((.....))))))).....))))).....................)))).. (-19.00 = -19.33 +   0.33)

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 12:57:09 2006