Locus 8518

Sequence ID 3L_DroMel_CAF1
Location 22,307,019 – 22,307,169
Length 150
Max. P 0.999772
window13947 window13948 window13949

overview

Window 7

Location 22,307,019 – 22,307,129
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.18
Mean single sequence MFE -32.18
Consensus MFE -23.11
Energy contribution -23.75
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -2.34
Structure conservation index 0.72
SVM decision value 0.72
SVM RNA-class probability 0.832429
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22307019 110 + 23771897
ACAUUU-----GCCCAUAUGUAUGUG-----CUGUCCAAAUGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAUAUGGUACAGAAAAGUG
...(((-----(.((((((...((((-----((((....))))).(((((((((((.(((((((..((....)).))))))).))))))).)))))))....))))))..))))...... ( -31.80)
>DroSec_CAF1 65658 115 + 1
ACAUUU-----GCCCAUAUGUAUGUGCUGUGCUGUCCAAAUGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGAAAAGUG
((((..-----......)))).((((((((....(((.....((((((...(((((.(((((((..((....)).))))))).)))))))))))...)))....))))))))........ ( -34.10)
>DroSim_CAF1 47693 115 + 1
ACAUUU-----GCCCAUAUGUAUGUGCUGUGCUGUCCAAAUGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGAAAAGUG
((((..-----......)))).((((((((....(((.....((((((...(((((.(((((((..((....)).))))))).)))))))))))...)))....))))))))........ ( -34.10)
>DroEre_CAF1 64100 110 + 1
ACAUUU-----GCCCAUAUGUAUGUG-----CCGUCCAAAUGGCAAGCGCUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACUGAAAAAAUGGUUGAGAAAAGUG
.(((((-----...(((((((...((-----((((....))))))...)).(((((.(((((((..((....)).))))))).))))))))))(((((........)))))....))))) ( -29.00)
>DroYak_CAF1 41257 115 + 1
AUGUAUGUACUGUACAUACAUAUGUG-----AAGUUCAAAUGGCAUGCGAUUUUGCAGCAACAAAGUGGUUGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGGAAAGUG
(((((((((...))))))))).((((-----...(((.....((((((...(((((.(((((((..((....)).))))))).)))))))))))....))).......))))........ ( -31.90)
>consensus
ACAUUU_____GCCCAUAUGUAUGUG_____CUGUCCAAAUGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGAAAAGUG
..............(((.....((((........(((.....((((((...(((((.(((((((..((....)).))))))).)))))))))))...)))........)))).....))) (-23.11 = -23.75 +   0.64)

alignment

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secondary structure

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Window 8

Location 22,307,049 – 22,307,169
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.42
Mean single sequence MFE -32.52
Consensus MFE -29.22
Energy contribution -29.78
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -2.62
Structure conservation index 0.90
SVM decision value 4.05
SVM RNA-class probability 0.999772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22307049 120 + 23771897
UGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAUAUGGUACAGAAAAGUGCGCACUGCAAGAAAAAUGGCUAGCUCGGUAGUGCGGGAGA
..((((((...(((((.(((((((..((....)).))))))).))))))))))).............((((......))))(((((((..((............)).)))))))...... ( -34.70)
>DroSec_CAF1 65693 120 + 1
UGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGAAAAGUGCGCACUGCAAGAAAAAUGGCUGGCUCAAAAGUGCGGGAAA
..((((((...(((((.(((((((..((....)).))))))).))))))))))).............((((......))))(((((((.((........)).)).....)))))...... ( -32.30)
>DroSim_CAF1 47728 120 + 1
UGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGAAAAGUGCGCACUGCAAGAAAAAUGGCUAGCUCAAAAGUGCGGGAAA
..((((((...(((((.(((((((..((....)).))))))).))))))))))).............((((......))))(((((((.((........)).)).....)))))...... ( -32.30)
>DroEre_CAF1 64130 120 + 1
UGGCAAGCGCUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACUGAAAAAAUGGUUGAGAAAAGUGCGCACUGAAAGAAAAAUGGCUAACCUAAAAGUGCGGGAAA
......((((((((((.(((((((..((....)).))))))).))........(((((........)))))..))))))))(((((...((.............))...)))))...... ( -31.12)
>DroYak_CAF1 41292 120 + 1
UGGCAUGCGAUUUUGCAGCAACAAAGUGGUUGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGGAAAGUGCGCACUGUAAGAAAAAUGGCUAACUUAAAAGUGCGGAAAA
..((((((...(((((.(((((((..((....)).))))))).))))))))))).............((((......))))(((((.((((............))))..)))))...... ( -32.20)
>consensus
UGGCAUGCGAUUUUGCAGCAACAAAGUGGUAGCAAUUGUUGCGGCAAAGUAUGCAACGGAAAAAAUGGUACAGAAAAGUGCGCACUGCAAGAAAAAUGGCUAGCUCAAAAGUGCGGGAAA
..((((((...(((((.(((((((..((....)).))))))).))))))))))).............((((......))))(((((((.((........)).)).....)))))...... (-29.22 = -29.78 +   0.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,307,049 – 22,307,169
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.42
Mean single sequence MFE -24.06
Consensus MFE -22.46
Energy contribution -22.22
Covariance contribution -0.24
Combinations/Pair 1.14
Mean z-score -1.88
Structure conservation index 0.93
SVM decision value 2.85
SVM RNA-class probability 0.997385
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22307049 120 - 23771897
UCUCCCGCACUACCGAGCUAGCCAUUUUUCUUGCAGUGCGCACUUUUCUGUACCAUAUUUUCCGUUGCAUACUUUGCCGCAACAAUUGCUACCACUUUGUUGCUGCAAAAUCGCAUGCCA
.....((((((..((((..((....))..)))).))))))..........................((((.((((((.(((((((...........))))))).)))))...).)))).. ( -24.40)
>DroSec_CAF1 65693 120 - 1
UUUCCCGCACUUUUGAGCCAGCCAUUUUUCUUGCAGUGCGCACUUUUCUGUACCAUUUUUUCCGUUGCAUACUUUGCCGCAACAAUUGCUACCACUUUGUUGCUGCAAAAUCGCAUGCCA
.....((((((.....((.((........)).))))))))..........................((((.((((((.(((((((...........))))))).)))))...).)))).. ( -23.30)
>DroSim_CAF1 47728 120 - 1
UUUCCCGCACUUUUGAGCUAGCCAUUUUUCUUGCAGUGCGCACUUUUCUGUACCAUUUUUUCCGUUGCAUACUUUGCCGCAACAAUUGCUACCACUUUGUUGCUGCAAAAUCGCAUGCCA
.....((((((.....((.((........)).))))))))..........................((((.((((((.(((((((...........))))))).)))))...).)))).. ( -23.30)
>DroEre_CAF1 64130 120 - 1
UUUCCCGCACUUUUAGGUUAGCCAUUUUUCUUUCAGUGCGCACUUUUCUCAACCAUUUUUUCAGUUGCAUACUUUGCCGCAACAAUUGCUACCACUUUGUUGCUGCAAAAGCGCUUGCCA
......(((......((....))..............((((........((((..........)))).....(((((.(((((((...........))))))).))))).)))).))).. ( -25.30)
>DroYak_CAF1 41292 120 - 1
UUUUCCGCACUUUUAAGUUAGCCAUUUUUCUUACAGUGCGCACUUUCCUGUACCAUUUUUUCCGUUGCAUACUUUGCCGCAACAAUUGCAACCACUUUGUUGCUGCAAAAUCGCAUGCCA
.....((((((..((((..((....))..)))).))))))..........................((((.((((((.(((((((...........))))))).)))))...).)))).. ( -24.00)
>consensus
UUUCCCGCACUUUUGAGCUAGCCAUUUUUCUUGCAGUGCGCACUUUUCUGUACCAUUUUUUCCGUUGCAUACUUUGCCGCAACAAUUGCUACCACUUUGUUGCUGCAAAAUCGCAUGCCA
.....((((((..((((..((....))..)))).))))))..........................((((.((((((.(((((((...........))))))).)))))...).)))).. (-22.46 = -22.22 +  -0.24)

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 13:17:47 2006