Locus 5983

Sequence ID 3L_DroMel_CAF1
Location 15,989,084 – 15,989,244
Length 160
Max. P 0.970111
window9565 window9566 window9567

overview

Window 5

Location 15,989,084 – 15,989,204
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.50
Mean single sequence MFE -23.98
Consensus MFE -23.24
Energy contribution -23.08
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.15
Structure conservation index 0.97
SVM decision value 0.23
SVM RNA-class probability 0.643517
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15989084 120 - 23771897
UGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUUAUCAAUUUGUUCGACUGCCAUUUUCGAUUCGAUUACACAU
...((((.(((...(((((((.......((((..(..(((.....))).)..))))......(((.......)))...)))))))......))).))))..................... ( -23.50)
>DroSec_CAF1 18096 120 - 1
UGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUAUGUGUAGCUUCUCCGGCUUUAGCUGCCAUUUUAUCAAUUUGUUCGACUGCCAUUUUCGAUUCGAUUACACAU
...((((.(((...((((((((((((.((..((((......)))).)).))).)).......(((.......)))...)))))))......))).))))..................... ( -23.30)
>DroSim_CAF1 19236 120 - 1
UGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUUUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUUAUCAAUUUGUUCGACUGCCAUUUUCGAUUCGAUUACACAU
...((((.(((...(((((((.....((((.((((......))))......)))).......(((.......)))...)))))))......))).))))..................... ( -22.60)
>DroEre_CAF1 19117 120 - 1
UUCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGAUUAAUCCAUUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUUAUCAAUUUGUUCGACUGCCAUUUUCGAUUCGAUUACACAU
...((((.(((...(((((((.......((((..(((..........)))..))))......(((.......)))...)))))))......))).))))..................... ( -25.30)
>DroYak_CAF1 18630 119 - 1
UUCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCACUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUUAUCAAAUUGUUCGACUGCCAUUUUCGAUUCGA-UACACAU
...((((.(((..((((((((.....((((.((((......))))......)))).......(((.......)))...)))))))).....))).)))).............-....... ( -25.20)
>consensus
UGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUUAUCAAUUUGUUCGACUGCCAUUUUCGAUUCGAUUACACAU
...((((.(((...(((((((.....((((.((((......))))......)))).......(((.......)))...)))))))......))).))))..................... (-23.24 = -23.08 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,989,124 – 15,989,244
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.83
Mean single sequence MFE -27.08
Consensus MFE -24.84
Energy contribution -24.84
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.31
Structure conservation index 0.92
SVM decision value 0.30
SVM RNA-class probability 0.679200
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15989124 120 + 23771897
AAAAUGGCAGCUAAAGCCGGAGAAGCUACAAAUAAAUGGAUUAAGCCACAGCAGGUGAGUUAUCAAAAGCGAACGCCGCAAUACGGUAGCCCCACAAAUGAAAUAUGAAGCUGCUGCGAA
.....(((((((......((.(..(((((.......(((......)))..((.((((.(((......)))...))))))......)))))))).(....)........)))))))..... ( -26.70)
>DroSec_CAF1 18136 120 + 1
AAAAUGGCAGCUAAAGCCGGAGAAGCUACACAUAAAUGGAUUAAGCCACAGCAGGUGAGUUAUCAAAAGCGAACGCCGCAAUACGGUAGCCCCACAAAUGAAAUAUGAAGCUGCUGCGAA
......(((((....((((((..((((.(((.....(((......)))......))))))).))....(((.....)))....))))(((..((...........))..))))))))... ( -27.60)
>DroSim_CAF1 19276 120 + 1
AAAAUGGCAGCUAAAGCCGGAGAAGCUACAAAAAAAUGGAUUAAGCCACAGCAGGUGAGUUAUCAAAAGCGAACGCCGCAAUACGGUAGCCCCACAAAUGAAAUAUGAAGCUGCUGCGAA
.....(((((((......((.(..(((((.......(((......)))..((.((((.(((......)))...))))))......)))))))).(....)........)))))))..... ( -26.70)
>DroEre_CAF1 19157 120 + 1
AAAAUGGCAGCUAAAGCCGGAGAAGCUACAAAUAAAUGGAUUAAUCCACAGCAGGUGAGUUAUCAAAAGCGAACGCCGAAAUACGGUAGCCCCACAAAUGAAAUACGAAGCUGCUGCGAA
.....(((((((......((.(..(((((.......((((....)))).....((((.(((......)))...))))........)))))))).(....)........)))))))..... ( -25.90)
>DroYak_CAF1 18669 120 + 1
AAAAUGGCAGCUAAAGCCGGAGAAGCUACAAAUAAGUGGAUUAAGCCACAGCAGGUGAGUUAUCAAAAGCGAACGCCGAAAUACGGUAGCCCCACAAAUGAAAUAUGAAGCUGCUGCGAA
.....(((((((......((.(..(((((......((((......))))....((((.(((......)))...))))........)))))))).(....)........)))))))..... ( -28.50)
>consensus
AAAAUGGCAGCUAAAGCCGGAGAAGCUACAAAUAAAUGGAUUAAGCCACAGCAGGUGAGUUAUCAAAAGCGAACGCCGCAAUACGGUAGCCCCACAAAUGAAAUAUGAAGCUGCUGCGAA
.....(((((((......((.(..(((((.......(((......))).....((((.(((......)))...))))........)))))))).(....)........)))))))..... (-24.84 = -24.84 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,989,124 – 15,989,244
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.83
Mean single sequence MFE -29.98
Consensus MFE -29.24
Energy contribution -28.92
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -1.56
Structure conservation index 0.98
SVM decision value 1.65
SVM RNA-class probability 0.970111
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15989124 120 - 23771897
UUCGCAGCAGCUUCAUAUUUCAUUUGUGGGGCUACCGUAUUGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUU
...((((((((((((((.......))))))))).(((....(((.....)))................((((..(..(((.....))).)..)))).....))).....)))))...... ( -29.80)
>DroSec_CAF1 18136 120 - 1
UUCGCAGCAGCUUCAUAUUUCAUUUGUGGGGCUACCGUAUUGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUAUGUGUAGCUUCUCCGGCUUUAGCUGCCAUUUU
...((((((((((((((.......))))))))).(((.....))).....(((...((...(((((.((..((((......)))).)).))).))..))...)))....)))))...... ( -31.10)
>DroSim_CAF1 19276 120 - 1
UUCGCAGCAGCUUCAUAUUUCAUUUGUGGGGCUACCGUAUUGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUUUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUU
.((((((((((((((((.......))))))))).(((.....))).......................)))))))................((((((...........))))))...... ( -29.40)
>DroEre_CAF1 19157 120 - 1
UUCGCAGCAGCUUCGUAUUUCAUUUGUGGGGCUACCGUAUUUCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGAUUAAUCCAUUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUU
...((((((((((((((.......))))))))).(((((((..(((....)))...))))........((((..(((..........)))..)))).....))).....)))))...... ( -28.70)
>DroYak_CAF1 18669 120 - 1
UUCGCAGCAGCUUCAUAUUUCAUUUGUGGGGCUACCGUAUUUCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCACUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUU
...((((((((((((((.......))))))))).(((((((..(((....)))...))))......((((.((((......))))......))))......))).....)))))...... ( -30.90)
>consensus
UUCGCAGCAGCUUCAUAUUUCAUUUGUGGGGCUACCGUAUUGCGGCGUUCGCUUUUGAUAACUCACCUGCUGUGGCUUAAUCCAUUUAUUUGUAGCUUCUCCGGCUUUAGCUGCCAUUUU
...((((((((((((((.......))))))))).(((((((..(((....)))...))))......((((.((((......))))......))))......))).....)))))...... (-29.24 = -28.92 +  -0.32)

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 12:05:58 2006