Locus 7562

Sequence ID 2L_DroMel_CAF1
Location 20,937,313 – 20,937,713
Length 400
Max. P 0.974505
window12156 window12157 window12158 window12159 window12160 window12161

overview

Window 6

Location 20,937,313 – 20,937,433
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -38.80
Consensus MFE -35.53
Energy contribution -36.53
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.92
SVM decision value -0.04
SVM RNA-class probability 0.510731
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20937313 120 + 22407834
UUUAACGUCAUGGCCAAUCCUUGUUCCCGGAGGCGGUUCGGAAAUACCGAAAUCUCGGCCUGAAACAUUGAUAAGUGGCUGGCCAGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUGU
....(((((.((((((((..((((((.(.((((...(((((.....))))).))))((((.(...((((....)))).).)))).).))).))).)))))))).....((...))))))) ( -39.50)
>DroSec_CAF1 23572 120 + 1
AUUAACGUCAUGGCCAAUCCUUGUUCCCGGAGGCUGUUCGGAAAUACCGAAAUCCCGGCCUGAAACAUUGAUAAGUGGCUGGCCGGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUGU
....(((((.((((((((..(((((((((((((((((((((.....)))))....))))))....((((....)))).....)))).))).))).)))))))).....((...))))))) ( -42.50)
>DroSim_CAF1 21932 120 + 1
AUUAACGUCAUGGCAAAUCCUUGUUCCCGGAGGCGGUUCGGAAAUACCGAAAUCUCGGCCUGAAACAUUGAUAAGUGCCUGGCCGGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUCU
.....((((..((((.(((..((((..(((.(.((((((((.....)))))...))).)))).))))..)))...))))(((((((..........)))))))..))))........... ( -34.40)
>consensus
AUUAACGUCAUGGCCAAUCCUUGUUCCCGGAGGCGGUUCGGAAAUACCGAAAUCUCGGCCUGAAACAUUGAUAAGUGGCUGGCCGGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUGU
.....((((.((((((((..((((((((.((((...(((((.....))))).))))((((.(...((((....)))).).)))))).))).))).))))))))..))))........... (-35.53 = -36.53 +   1.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,937,313 – 20,937,433
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -39.67
Consensus MFE -38.29
Energy contribution -38.40
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.27
Structure conservation index 0.97
SVM decision value 1.33
SVM RNA-class probability 0.942915
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20937313 120 - 22407834
ACAUCGCUCUGCGUCUUUGGCCAAUUUCGAUUCUCUGGCCAGCCACUUAUCAAUGUUUCAGGCCGAGAUUUCGGUAUUUCCGAACCGCCUCCGGGAACAAGGAUUGGCCAUGACGUUAAA
..........(((((..(((((((((((((.((((.((((.(..((........))..).))))))))..)))...((((((.........))))))...)))))))))).))))).... ( -40.00)
>DroSec_CAF1 23572 120 - 1
ACAUCGCUCUGCGUCUUUGGCCAAUUUCGAUUCUCCGGCCAGCCACUUAUCAAUGUUUCAGGCCGGGAUUUCGGUAUUUCCGAACAGCCUCCGGGAACAAGGAUUGGCCAUGACGUUAAU
..........(((((..((((((((((...((((((((((.(..((........))..).)))))((..(((((.....)))))...))...)))))...)))))))))).))))).... ( -42.40)
>DroSim_CAF1 21932 120 - 1
AGAUCGCUCUGCGUCUUUGGCCAAUUUCGAUUCUCCGGCCAGGCACUUAUCAAUGUUUCAGGCCGAGAUUUCGGUAUUUCCGAACCGCCUCCGGGAACAAGGAUUUGCCAUGACGUUAAU
..........(((((..((((.(((((...(((.((((..((((..........(((((.....)))))(((((.....)))))..)))))))))))...))))).)))).))))).... ( -36.60)
>consensus
ACAUCGCUCUGCGUCUUUGGCCAAUUUCGAUUCUCCGGCCAGCCACUUAUCAAUGUUUCAGGCCGAGAUUUCGGUAUUUCCGAACCGCCUCCGGGAACAAGGAUUGGCCAUGACGUUAAU
..........(((((..(((((((((((((.((((.((((.(..((........))..).))))))))..)))...((((((.........))))))...)))))))))).))))).... (-38.29 = -38.40 +   0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,937,353 – 20,937,473
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -37.03
Consensus MFE -35.74
Energy contribution -35.63
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.43
Structure conservation index 0.97
SVM decision value 1.43
SVM RNA-class probability 0.953410
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20937353 120 + 22407834
GAAAUACCGAAAUCUCGGCCUGAAACAUUGAUAAGUGGCUGGCCAGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUGUGCUGGCCACAGUCAUAAUUAAUACAGGAGGCCGGCAAACA
..............(((((((.....((((((..((((((((((((...((((...((.((.......)).)).))))...))))))..)))))).)))))).....)))))))...... ( -37.00)
>DroSec_CAF1 23612 120 + 1
GAAAUACCGAAAUCCCGGCCUGAAACAUUGAUAAGUGGCUGGCCGGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUGUGCUGGCCACAGUCAUAAUUAAUACAGGAGGCCGGCAAACA
..............(((((((.....((((((..((((((((((((...((((...((.((.......)).)).))))...))))))..)))))).)))))).....)))))))...... ( -38.70)
>DroSim_CAF1 21972 120 + 1
GAAAUACCGAAAUCUCGGCCUGAAACAUUGAUAAGUGCCUGGCCGGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUCUGCUGGCCACAGUCAUAAUUAAUACAGGAGGCCGGCAAACA
..............(((((((....((((....))))((((....((..((.((...((((((.....(((((....)))))))))))...))))..))....)))))))))))...... ( -35.40)
>consensus
GAAAUACCGAAAUCUCGGCCUGAAACAUUGAUAAGUGGCUGGCCGGAGAAUCGAAAUUGGCCAAAGACGCAGAGCGAUGUGCUGGCCACAGUCAUAAUUAAUACAGGAGGCCGGCAAACA
..............(((((((.....((((((..((((((((((((...((((...((.((.......)).)).))))...))))))..)))))).)))))).....)))))))...... (-35.74 = -35.63 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,937,433 – 20,937,553
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.77
Mean single sequence MFE -36.23
Consensus MFE -32.70
Energy contribution -33.37
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.90
SVM decision value 0.62
SVM RNA-class probability 0.803318
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20937433 120 - 22407834
GCAAGGCAAAUGCAAAUGCAAAUGCAGACGUUGCUGGCAUGUGUGGUAUAAUAUAUGUGUACUUUAUUUGUUUGCCACUUUGUUUGCCGGCCUCCUGUAUUAAUUAUGACUGUGGCCAGC
((..(((((((((((.(((....)))....))))(((((.(((.((((((.......)))))).))).....)))))....)))))))((((.(...(((.....)))...).)))).)) ( -35.30)
>DroSec_CAF1 23692 119 - 1
GCAAGGCAAAUGCAAAUGCAAAUGCAGAUGUUGCUUGCAUGUGU-GUAUAAUAUAUGUGGACUUUAUUUGUUUGCCACUUUGUUUGCCGGCCUCCUGUAUUAAUUAUGACUGUGGCCAGC
((..(((((..(((((.((((..(((((((..(.(..(((((((-.....)))))))..).)..)))))))))))...))))))))))((((.(...(((.....)))...).)))).)) ( -37.20)
>DroSim_CAF1 22052 119 - 1
GCAAGGCAAAUGCAAAUGCAAAUGCAGAUGUUGCUGGCAUGUGU-GUAUAAUAUAUGUGGACUUUAUUUGUUUGCCACUUUGUUUGCCGGCCUCCUGUAUUAAUUAUGACUGUGGCCAGC
((..(((((..(((((.((((..(((((((..(.(.((((((((-.....)))))))).).)..)))))))))))...))))))))))((((.(...(((.....)))...).)))).)) ( -36.20)
>consensus
GCAAGGCAAAUGCAAAUGCAAAUGCAGAUGUUGCUGGCAUGUGU_GUAUAAUAUAUGUGGACUUUAUUUGUUUGCCACUUUGUUUGCCGGCCUCCUGUAUUAAUUAUGACUGUGGCCAGC
((..(((((..(((((.((((..(((((((..(.(.((((((((......)))))))).).)..)))))))))))...))))))))))((((.(...(((.....)))...).)))).)) (-32.70 = -33.37 +   0.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,937,473 – 20,937,593
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.66
Mean single sequence MFE -22.40
Consensus MFE -19.47
Energy contribution -19.47
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.87
SVM decision value 0.05
SVM RNA-class probability 0.556981
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20937473 120 + 22407834
AAGUGGCAAACAAAUAAAGUACACAUAUAUUAUACCACACAUGCCAGCAACGUCUGCAUUUGCAUUUGCAUUUGCCUUGCAGUGUGUUGUCCUAACGCCCCCUCUCAAAAUUUAAACAUA
.((.(((((....((((.(((....))).))))..(((((.(((.((........(((..(((....)))..))))).)))))))))))))))........................... ( -20.50)
>DroSec_CAF1 23732 119 + 1
AAGUGGCAAACAAAUAAAGUCCACAUAUAUUAUAC-ACACAUGCAAGCAACAUCUGCAUUUGCAUUUGCAUUUGCCUUGCAGUGUGUUGUCCCAACGCCCCCUCUCAAAAUUUAAACACA
..(((((...........).)))).........((-((((.((((((........(((..(((....)))..)))))))))))))))................................. ( -25.40)
>DroSim_CAF1 22092 119 + 1
AAGUGGCAAACAAAUAAAGUCCACAUAUAUUAUAC-ACACAUGCCAGCAACAUCUGCAUUUGCAUUUGCAUUUGCCUUGCAGUGUGUUGUCCCAACGCCCCCUCUCAAAAUUUAAACACA
..(((((...........).)))).........((-((((.(((.((........(((..(((....)))..))))).)))))))))................................. ( -21.30)
>consensus
AAGUGGCAAACAAAUAAAGUCCACAUAUAUUAUAC_ACACAUGCCAGCAACAUCUGCAUUUGCAUUUGCAUUUGCCUUGCAGUGUGUUGUCCCAACGCCCCCUCUCAAAAUUUAAACACA
....(((......((((.((......)).))))((.((((((....((((.....(((..(((....)))..))).)))).)))))).))......)))..................... (-19.47 = -19.47 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,937,593 – 20,937,713
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -29.37
Consensus MFE -29.59
Energy contribution -29.37
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.47
Structure conservation index 1.01
SVM decision value 1.73
SVM RNA-class probability 0.974505
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20937593 120 + 22407834
CACUUUAGUUAUUUAUUGCUGCUCUCGUUUGCCCAUCGAUGUUGUCUUGUUGUGCGGCAAAUGCAUUUUAAUAUUUCACAUUGAUUUGUUAUGCAAAAAUUUGAUGGCUCUGUGAUACAC
(((...(((((((.(((..(((...((((((((((.(((((......))))))).)))))))).....(((((..((.....))..))))).)))..)))..)))))))..)))...... ( -27.70)
>DroSec_CAF1 23851 120 + 1
CACUUUAGUUAUUUAUUGCUGCUCUCGUUUGCCCAUCGACGUUGUCUUGUUGUGCGGCAAAUGCAUUUUAAUAUUUCACAUUGAUUUGUUAUGCAAAAAUUUGAUGGCUCUGUGAUACAC
(((...(((((((.(((..(((...((((((((((.(((((......))))))).)))))))).....(((((..((.....))..))))).)))..)))..)))))))..)))...... ( -30.20)
>DroSim_CAF1 22211 120 + 1
CACUUUAGUUAUUUAUUGCUGCUCUCGUUUGCCCAUCGACGUUGUCUUGUUGUGCGGCAAAUGCAUUUUAAUAUUUCACAUUGAUUUGUUAUGCAAAAAUUUGAUGGCUCUGUGAUACAC
(((...(((((((.(((..(((...((((((((((.(((((......))))))).)))))))).....(((((..((.....))..))))).)))..)))..)))))))..)))...... ( -30.20)
>consensus
CACUUUAGUUAUUUAUUGCUGCUCUCGUUUGCCCAUCGACGUUGUCUUGUUGUGCGGCAAAUGCAUUUUAAUAUUUCACAUUGAUUUGUUAUGCAAAAAUUUGAUGGCUCUGUGAUACAC
(((...(((((((.(((..(((...((((((((((.(((((......))))))).)))))))).....(((((..((.....))..))))).)))..)))..)))))))..)))...... (-29.59 = -29.37 +  -0.22)

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 12:39:58 2006