Locus 1567

Sequence ID 3L_DroMel_CAF1
Location 4,571,393 – 4,571,550
Length 157
Max. P 0.999907
window2431 window2432

overview

Window 1

Location 4,571,393 – 4,571,510
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.66
Mean single sequence MFE -29.22
Consensus MFE -26.50
Energy contribution -26.54
Covariance contribution 0.04
Combinations/Pair 1.15
Mean z-score -3.19
Structure conservation index 0.91
SVM decision value 4.48
SVM RNA-class probability 0.999907
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4571393 117 + 23771897
UAUUGCUU--CAUUUUCAAAGGCUGGGCAACUCUGACGACCAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUCCCCUGAGAUGCACAUUUU-GAGUUACUAUCCUUUAGGAAA
........--..(((..(((((.(((..(((((((.....)).....(((((((((((((((.....................)))))))))))))))-))))).))).)))))..))). ( -30.70)
>DroSec_CAF1 148298 117 + 1
UAUUGCUU--CAUUUUCAAAGGCUGGGUAACUCUGACGACCAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUUCCCUGAGCUGCACAUUUU-GAGUUACUAUCCUUUAGGAAA
........--..(((..(((((...((((((((((.....)).....((((((((((.((((.....................)))).))))))))))-))))))))..)))))..))). ( -29.20)
>DroSim_CAF1 148568 117 + 1
UAUUGCUU--CAUUUUCAAAGGCUGGUUAACUCUGACGACCAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUUCCCUGAGCUGCACGUUUU-GAGUUACUUACCUUUAGGAAA
........--..(((..(((((..(((.(((((((.....)).....((((((((((.((((.....................)))).))))))))))-))))))))..)))))..))). ( -25.90)
>DroEre_CAF1 156377 119 + 1
UAUUGCUUCUCAUUUUCAAAGGCUAGUUGGCUCUGACGACCAGCUUAAAAAUGUGUAUCUCAAAUUCCCCUAUCCCUCCC-CCCGAGAUGCACAUUUUAGAGUUAGUUUCCUUUUGGGAA
....(((.(((........(((((.((((.......)))).))))).((((((((((((((...................-...)))))))))))))).)))..)))((((....)))). ( -32.55)
>DroYak_CAF1 153245 119 + 1
UAUUGCUUCGCAUUUUCAAAGGCUGGGUAACUCUGACGUCCAGCUUAAAAAUAUGUAUCUCAAAU-CCCAUAGCCCUCCCUCCCGAGAUGCACAUUUUAGAGUUACUUUCCUUUAGGGAA
...(((...)))((..((((((..((((((((((...(.....)...(((((.((((((((....-..................)))))))).))))))))))))))).))))).)..)) ( -27.75)
>consensus
UAUUGCUU__CAUUUUCAAAGGCUGGGUAACUCUGACGACCAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUCCCCUGAGAUGCACAUUUU_GAGUUACUUUCCUUUAGGAAA
............((((((((((...((((((((((.....)).....((((((((((((((.......................)))))))))))))).))))))))..))))).))))) (-26.50 = -26.54 +   0.04)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,571,431 – 4,571,550
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.62
Mean single sequence MFE -26.87
Consensus MFE -21.60
Energy contribution -22.20
Covariance contribution 0.60
Combinations/Pair 1.12
Mean z-score -1.71
Structure conservation index 0.80
SVM decision value 0.51
SVM RNA-class probability 0.765204
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4571431 119 + 23771897
CAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUCCCCUGAGAUGCACAUUUU-GAGUUACUAUCCUUUAGGAAAUGCUGGAAAGCUGGCUAUGUAAUUCUUGUUAGGGAAUGUA
...(((((((((((((((((((.....................)))))))))))))))-(((((((..(((....)))...((..(....)..))...)))))))....))))....... ( -32.70)
>DroSec_CAF1 148336 115 + 1
CAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUUCCCUGAGCUGCACAUUUU-GAGUUACUAUCCUUUAGGAAAUG----AAAGCUGGCUAUGUAAUUUUUGUUAGGGAAUGUA
.(((((((((.((((((.((((.....................)))).))))))))))-)))))....(((((..((((((.----..((....)).....))))))...)))))..... ( -23.70)
>DroSim_CAF1 148606 115 + 1
CAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUUCCCUGAGCUGCACGUUUU-GAGUUACUUACCUUUAGGAAAUG----AAAGCUGGCUAUGCAAUUUUUGUUAGGGCAUGUA
.(((((((((.((((((.((((.....................)))).))))))))))-))))).....(((...((((((.----...((.......)).))))))...)))....... ( -23.10)
>DroEre_CAF1 156417 115 + 1
CAGCUUAAAAAUGUGUAUCUCAAAUUCCCCUAUCCCUCCC-CCCGAGAUGCACAUUUUAGAGUUAGUUUCCUUUUGGGAAUG----AAAGCUGGAUAUGUAUUUUUUGUUAGGGAAUGUU
((((((.((((((((((((((...................-...)))))))))))))).......((((((....)))))).----.))))))......(((((((.....))))))).. ( -30.05)
>DroYak_CAF1 153285 111 + 1
CAGCUUAAAAAUAUGUAUCUCAAAU-CCCAUAGCCCUCCCUCCCGAGAUGCACAUUUUAGAGUUACUUUCCUUUAGGGAAUG----AAAGCUGGAUAUGCAUUUUUUGUUAGGGAA----
..(((........((.....))...-.....)))..(((((..(((((((((...(((((..((...((((.....))))..----))..)))))..))))))..)))..))))).---- ( -24.79)
>consensus
CAACUUAAAAAUGUGUAUCUCAAAUCCCCAUAUCCCUUUCCCCUGAGAUGCACAUUUU_GAGUUACUUUCCUUUAGGAAAUG____AAAGCUGGCUAUGUAAUUUUUGUUAGGGAAUGUA
.(((((.((((((((((((((.......................)))))))))))))).)))))....(((((..((((((........((.......)).))))))...)))))..... (-21.60 = -22.20 +   0.60)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:51 2006