Locus 8541

Sequence ID 3R_DroMel_CAF1
Location 22,812,847 – 22,812,991
Length 144
Max. P 0.952680
window13725 window13726

overview

Window 5

Location 22,812,847 – 22,812,951
Length 104
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 82.93
Mean single sequence MFE -31.71
Consensus MFE -21.17
Energy contribution -21.01
Covariance contribution -0.16
Combinations/Pair 1.22
Mean z-score -2.36
Structure conservation index 0.67
SVM decision value 1.10
SVM RNA-class probability 0.915654
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22812847 104 - 27905053
GUCCAGCAUUCUCGAAAGAGAUACGAUGGUGAAAUG-------------UACCUGUUGAUUAUUCUUAAUAUU-UUAUUAGGCUGAUAUCGACCUGGCUGUGAAAGCGGCCAAGAAAG
...(((((.((((....))))......((((.....-------------)))))))))....(((((......-.....(((.((....)).)))((((((....))))))))))).. ( -30.50)
>DroSec_CAF1 21867 109 - 1
GUCCAGCAUUCUCGAAAGGGAUAGGAUGGUGAAAUAGUC-AUAAUAA--------UUGAUUAUUCCUAUAAUUUUUAUUAGGCUGACAUCGACCUGGCUGUGAAAGCGGCCAAGAAAG
((((.....((((....))))..))))(((((..(((((-.((((((--------..((((((....)))))).)))))))))))...)).)))(((((((....)))))))...... ( -34.40)
>DroSim_CAF1 22180 116 - 1
GUCCAGCACUCUCGAAAGAGAUAGGAUGGUGAAAUAGUC-AUAAUAAUAUACCUGUUGAUUAUUCUUAUAAUU-UUAUUAGGCUGACAUCGACCUGGCUGUGAAAGCGGCGAAGAAAG
(((.(((..((((....))))((((((.(((((((((((-(...............)))))))).)))).)))-)))....))))))......((.(((((....)))))..)).... ( -30.66)
>DroEre_CAF1 21771 116 - 1
GUCCAGCAUUCUCGAAAGUGAUAGGCUGGCGAAAUGGUC-AUAACAAUAAACCUGCUGAUUAUUUCUAUAAUU-UUGUUAGGCUGACAUCGACCUGGCUGUGAAAGCGGCCAAGAAAG
(.(((((..((.(....).))...)))))).....((((-...........(((((.((((((....))))))-..).))))..(....)))))(((((((....)))))))...... ( -35.30)
>DroYak_CAF1 21924 117 - 1
GUCCAGCUUUCUCAAAAGAGAUAAGAUGGUGAAAUAGUCGAUAACAUCAUAACUGUUAAUUGAUUCUAUAAUU-AAAUUAGGCUGACAUCGACCUGGCGGUGAAAGCGGCCAAGAAAG
(((.((((.((((....))))(((..((((.....(((((((((((.......)))).))))))).....)))-)..)))))))))).....(.((((.((....)).)))).).... ( -27.70)
>consensus
GUCCAGCAUUCUCGAAAGAGAUAGGAUGGUGAAAUAGUC_AUAACAA_AUACCUGUUGAUUAUUCCUAUAAUU_UUAUUAGGCUGACAUCGACCUGGCUGUGAAAGCGGCCAAGAAAG
(((.(((..((((....))))..................................(((((................))))))))))).....(.(((((((....))))))).).... (-21.17 = -21.01 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 22,812,886 – 22,812,991
Length 105
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 82.14
Mean single sequence MFE -31.08
Consensus MFE -21.52
Energy contribution -21.36
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -2.41
Structure conservation index 0.69
SVM decision value 1.42
SVM RNA-class probability 0.952680
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22812886 105 - 27905053
UCCAAGGAGAUUGUCCAAGUCUCCGAGGGAGAUAAGGUGAGUCCAGCAUUCUCGAAAGAGAUACGAUGGUGAAAUG-------------UACCUGUUGAUUAUUCUUAAUAUU-UUAUU
(((..(((((((.....)))))))...)))..(((((..((((.((((.((((....))))......((((.....-------------))))))))))))..))))).....-..... ( -30.60)
>DroSec_CAF1 21906 110 - 1
UCCAAGGAGAUUGUCCAGGUCUCCGAGGGAGAUAAGGUGAGUCCAGCAUUCUCGAAAGGGAUAGGAUGGUGAAAUAGUC-AUAAUAA--------UUGAUUAUUCCUAUAAUUUUUAUU
(((..(((((((.....)))))))...)))(((((((...((((.....((((....))))..))))((...(((((((-(......--------.))))))))))......))))))) ( -29.70)
>DroSim_CAF1 22219 117 - 1
UCCAAGGAGAUUGUCCAGGUCUCCGAGGGAGAUAAGGUAAGUCCAGCACUCUCGAAAGAGAUAGGAUGGUGAAAUAGUC-AUAAUAAUAUACCUGUUGAUUAUUCUUAUAAUU-UUAUU
(((..(((((((.....)))))))...)))((((((((..((((.....((((....))))..)))).(((((((((((-(...............)))))))).)))).)))-))))) ( -31.06)
>DroEre_CAF1 21810 117 - 1
UCCAAGGAGAUUGUAAAGGUCUCCGAGGGAGAUAAGGUGAGUCCAGCAUUCUCGAAAGUGAUAGGCUGGCGAAAUGGUC-AUAACAAUAAACCUGCUGAUUAUUUCUAUAAUU-UUGUU
(((..(((((((.....)))))))...)))((((((((..(.(((((..((.(....).))...))))))(((((((((-(...............))))))))))....)))-))))) ( -37.06)
>DroYak_CAF1 21963 118 - 1
UCCAAGGAGAUUGUGAAAGUCUCCGAGGGAGAUAAGGUGAGUCCAGCUUUCUCAAAAGAGAUAAGAUGGUGAAAUAGUCGAUAACAUCAUAACUGUUAAUUGAUUCUAUAAUU-AAAUU
(((..(((((((.....)))))))...)))......((....(((.(((((((....)))).))).)))....))(((((((((((.......)))).)))))))........-..... ( -27.00)
>consensus
UCCAAGGAGAUUGUCCAGGUCUCCGAGGGAGAUAAGGUGAGUCCAGCAUUCUCGAAAGAGAUAGGAUGGUGAAAUAGUC_AUAACAA_AUACCUGUUGAUUAUUCCUAUAAUU_UUAUU
(((..(((((((.....)))))))...)))............(((....((((....)))).....))).................................................. (-21.52 = -21.36 +  -0.16)

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 13:13:40 2006