Locus 3093

Sequence ID 2R_DroMel_CAF1
Location 10,584,817 – 10,584,916
Length 99
Max. P 0.973586
window5107 window5108

overview

Window 7

Location 10,584,817 – 10,584,916
Length 99
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 88.85
Mean single sequence MFE -30.62
Consensus MFE -25.47
Energy contribution -26.72
Covariance contribution 1.25
Combinations/Pair 1.07
Mean z-score -3.19
Structure conservation index 0.83
SVM decision value 1.71
SVM RNA-class probability 0.973586
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10584817 99 + 20766785
CGAAAUGAUUUCAUUUCUUUUAUUUAUGA--------UGCUCGGUUCAGUGGGGCUUUGCCAUCAGCUUCCCUUUGGCUGGCUGCAUUAAGCCUUCACUGAGGUUUC
.((((((....))))))............--------.......((((((((((((((((..((((((.......))))))..)))..))))).))))))))..... ( -32.90)
>DroSec_CAF1 33840 99 + 1
CGAAAUGAUUUCAUUUCUUUUAUUUAUGA--------UGCUCGGUUCAGUGGGGCUUCGCCAUCAGCUUCCCUUUGGCUGGCUGCAUUAAGCCUUCACUGAGGUUUC
.((((((....))))))............--------.......(((((((((((((.((..((((((.......))))))..))...))))).))))))))..... ( -31.20)
>DroSim_CAF1 33168 99 + 1
CGAAAUGAUUUCAUUUCUUUUAUUUAUGA--------UGCUCGGUUCAGUGGGGCUUCGCCAUCAGCUUCCCUUUGGCUGGCUGCAUUAAGCCUUCACUGAGGUUUC
.((((((....))))))............--------.......(((((((((((((.((..((((((.......))))))..))...))))).))))))))..... ( -31.20)
>DroEre_CAF1 33278 99 + 1
CGAAAUGAUUUCAUUUCUUUUAUUUAUGA--------UGCUCGGUUCAGUGGGGCUUCGCCUUCGGCUUUCCUUUGGCUGGCUGCAUUAAGCCUUCACUGAGGUUUC
.((((((....))))))............--------.......(((((((((((((.((..((((((.......))))))..))...))))).))))))))..... ( -30.50)
>DroYak_CAF1 40348 99 + 1
CGAAAUGAUUUCAUUUCUUUUAUUUAUGA--------UGCUCGGUUCAGUGGGGCUUUGCCUUCAGCUUCCUUUUGGCUGGAUGCAUUAAGCCUUCACUGAGGUUUC
.((((((....))))))............--------.......((((((((((((((((.(((((((.......))))))).)))..))))).))))))))..... ( -34.90)
>DroAna_CAF1 67176 99 + 1
CGAAAUGAUUUCAUUUCUUUUAUUUAUGACGCCAAACUGCUCCGUUCGGU------UCGCCUUUUGGUA-GCUGAGGCU-GCAGCAUUAAGCCUUCACUGAGAUUUC
.((((((....)))))).............((((((..((.((....)).------..))..))))))(-(..((((((-.........))))))..))........ ( -23.00)
>consensus
CGAAAUGAUUUCAUUUCUUUUAUUUAUGA________UGCUCGGUUCAGUGGGGCUUCGCCAUCAGCUUCCCUUUGGCUGGCUGCAUUAAGCCUUCACUGAGGUUUC
.((((((....))))))...........................(((((((((((((.((..((((((.......))))))..))...))))).))))))))..... (-25.47 = -26.72 +   1.25)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,584,817 – 10,584,916
Length 99
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 88.85
Mean single sequence MFE -27.22
Consensus MFE -20.54
Energy contribution -21.65
Covariance contribution 1.11
Combinations/Pair 1.14
Mean z-score -3.07
Structure conservation index 0.75
SVM decision value 0.29
SVM RNA-class probability 0.671381
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10584817 99 - 20766785
GAAACCUCAGUGAAGGCUUAAUGCAGCCAGCCAAAGGGAAGCUGAUGGCAAAGCCCCACUGAACCGAGCA--------UCAUAAAUAAAAGAAAUGAAAUCAUUUCG
......((((((..((((......)))).((((..((....))..)))).......))))))........--------............((((((....)))))). ( -27.70)
>DroSec_CAF1 33840 99 - 1
GAAACCUCAGUGAAGGCUUAAUGCAGCCAGCCAAAGGGAAGCUGAUGGCGAAGCCCCACUGAACCGAGCA--------UCAUAAAUAAAAGAAAUGAAAUCAUUUCG
......((((((..(((((....((((...((....))..))))......))))).))))))........--------............((((((....)))))). ( -28.00)
>DroSim_CAF1 33168 99 - 1
GAAACCUCAGUGAAGGCUUAAUGCAGCCAGCCAAAGGGAAGCUGAUGGCGAAGCCCCACUGAACCGAGCA--------UCAUAAAUAAAAGAAAUGAAAUCAUUUCG
......((((((..(((((....((((...((....))..))))......))))).))))))........--------............((((((....)))))). ( -28.00)
>DroEre_CAF1 33278 99 - 1
GAAACCUCAGUGAAGGCUUAAUGCAGCCAGCCAAAGGAAAGCCGAAGGCGAAGCCCCACUGAACCGAGCA--------UCAUAAAUAAAAGAAAUGAAAUCAUUUCG
......((((((..((((......)))).(((...((....))...))).......))))))........--------............((((((....)))))). ( -26.00)
>DroYak_CAF1 40348 99 - 1
GAAACCUCAGUGAAGGCUUAAUGCAUCCAGCCAAAAGGAAGCUGAAGGCAAAGCCCCACUGAACCGAGCA--------UCAUAAAUAAAAGAAAUGAAAUCAUUUCG
......((((((..(((((..(((...((((.........))))...)))))))).))))))........--------............((((((....)))))). ( -27.50)
>DroAna_CAF1 67176 99 - 1
GAAAUCUCAGUGAAGGCUUAAUGCUGC-AGCCUCAGC-UACCAAAAGGCGA------ACCGAACGGAGCAGUUUGGCGUCAUAAAUAAAAGAAAUGAAAUCAUUUCG
.........((((..(((....(((((-.((((....-.......))))..------.((....)).)))))..))).))))........((((((....)))))). ( -26.10)
>consensus
GAAACCUCAGUGAAGGCUUAAUGCAGCCAGCCAAAGGGAAGCUGAAGGCGAAGCCCCACUGAACCGAGCA________UCAUAAAUAAAAGAAAUGAAAUCAUUUCG
......((((((..((((......)))).((((..((....))..)))).......))))))............................((((((....)))))). (-20.54 = -21.65 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:23 2006