Locus 2283

Sequence ID 2L_DroMel_CAF1
Location 6,175,224 – 6,175,368
Length 144
Max. P 0.997960
window3666 window3667

overview

Window 6

Location 6,175,224 – 6,175,332
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -38.62
Consensus MFE -33.14
Energy contribution -32.82
Covariance contribution -0.32
Combinations/Pair 1.07
Mean z-score -2.41
Structure conservation index 0.86
SVM decision value 2.97
SVM RNA-class probability 0.997960
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6175224 108 + 22407834
UUCAUUAGCACGCACGUCGGCGCCAUUUUGCAAACGCAUUUCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU------------UCCCAAACUGGGGAUGACCUUUUACUCCCAUCC
......(((.(((((((((((((......))....(((.......))).)))).))))))))))(((((((....------------..)).)))))(((((((....))).)))).... ( -35.30)
>DroSec_CAF1 11538 108 + 1
UUCAUUAGCACGCACGUCGGCGCCAUUUUGCAAACGCAUUUCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU------------UCCCAAACUGGGGAUGACCUUUCACUCCCAUCC
......(((.(((((((((((((......))....(((.......))).)))).))))))))))(((((((....------------..)).)))))(((((((....))).)))).... ( -37.50)
>DroSim_CAF1 20965 108 + 1
UUCAUUAGCACGCACGUCGGCGCCAUUUUGCAAACGCAUUUCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU------------UCCCAAACUGGGGAUGACCUUUCACUCCCAUCC
......(((.(((((((((((((......))....(((.......))).)))).))))))))))(((((((....------------..)).)))))(((((((....))).)))).... ( -37.50)
>DroEre_CAF1 11012 107 + 1
UUCAUUAGCACGCACGUCGGCGCCAUUUUGCAAACGCAUUUCCGCUGCAGCCGCACGUGCGGUUCAGCUGGCGUU-------------UCCAAACUGGGGAUGACCUUUGGCUCCCGGCC
...............(((((.((((...(((....))).....((((.((((((....)))))))))).(((((.-------------.((.....))..))).))..))))..))))). ( -40.70)
>DroYak_CAF1 21857 120 + 1
UUCAUUAGCACGCACGUCGGCGCCAUUUUGCAAACGCAUUUCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUUCAACAUCCAACAUCCCCAACUGGGGAUGACCUUUCACUCCAAGCC
.......((..((((((((((((......))....(((.......))).)))).))))))(((...((((.....))))......(((((((....))))))))))...........)). ( -42.10)
>consensus
UUCAUUAGCACGCACGUCGGCGCCAUUUUGCAAACGCAUUUCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU____________UCCCAAACUGGGGAUGACCUUUCACUCCCAUCC
..............(((((((((((...(((....))).....((((.((((((....))))))))))))))))).............(((.....)))))))................. (-33.14 = -32.82 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 7

Location 6,175,264 – 6,175,368
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.24
Mean single sequence MFE -38.22
Consensus MFE -25.10
Energy contribution -25.42
Covariance contribution 0.32
Combinations/Pair 1.23
Mean z-score -2.08
Structure conservation index 0.66
SVM decision value 0.57
SVM RNA-class probability 0.785757
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6175264 104 + 22407834
UCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU------------UCCCAAACUGGGGAUGACCUUUUACUCCCAUCCAAGCCAGAUAGA----UGUGAAAUAGCAGUGAUCAGCACU
..((((((((((((....))))))...(((((...------------..((.....))(((((............)))))..))))).....----.........))))))......... ( -32.20)
>DroSec_CAF1 11578 104 + 1
UCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU------------UCCCAAACUGGGGAUGACCUUUCACUCCCAUCCAAACCAGAUAGA----UGUGAAAUAGCAGGGAUCAGCACU
.(.((((.((((((....)))))))))).)((...------------((((...(((((((((............)))))...)))).....----(((......)))))))...))... ( -34.70)
>DroSim_CAF1 21005 104 + 1
UCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU------------UCCCAAACUGGGGAUGACCUUUCACUCCCAUCCAAACCAGAUAGA----UGUGAAAUAGCAGGGAUCAGCACU
.(.((((.((((((....)))))))))).)((...------------((((...(((((((((............)))))...)))).....----(((......)))))))...))... ( -34.70)
>DroEre_CAF1 11052 107 + 1
UCCGCUGCAGCCGCACGUGCGGUUCAGCUGGCGUU-------------UCCAAACUGGGGAUGACCUUUGGCUCCCGGCCAAGCCAAAUGGAUCCAUGGCACAUCGCAGGGAAGCGCACU
...((((.((((((....))))))))))..(((((-------------(((......(.((((....(((((.....)))))((((..((....)))))).)))).)..))))))))... ( -48.20)
>DroYak_CAF1 21897 120 + 1
UCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUUCAACAUCCAACAUCCCCAACUGGGGAUGACCUUUCACUCCAAGCCCAGCUAAAUAGAUCCAUGCGAAAUCGCAGGGCAAAACACU
.((((((.((((((....))))))))).))).(((..........(((((((....)))))))..............((((..((....)).....((((....))))))))..)))... ( -41.30)
>consensus
UCCGCUGCAGCCGCACGUGCGGUUCAGUUGGCGUU____________UCCCAAACUGGGGAUGACCUUUCACUCCCAUCCAAGCCAGAUAGA____UGUGAAAUAGCAGGGAUCAGCACU
.((((((.((((((....)))))))))).))................((((....((((..(((....)))..))))...................(((......)))))))........ (-25.10 = -25.42 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:01 2006