Locus 7823

Sequence ID 2L_DroMel_CAF1
Location 22,170,688 – 22,170,848
Length 160
Max. P 0.832467
window12536 window12537

overview

Window 6

Location 22,170,688 – 22,170,808
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.33
Mean single sequence MFE -35.20
Consensus MFE -22.19
Energy contribution -21.94
Covariance contribution -0.25
Combinations/Pair 1.26
Mean z-score -1.75
Structure conservation index 0.63
SVM decision value 0.08
SVM RNA-class probability 0.571637
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22170688 120 - 22407834
GCAACUUUUCGUUGUACAAAGGCAGAGAAGACAUAAGUACAAAGAACGCCGUGGUACCCUGCGAGUGUGCAACAAAAUGCAAAGAGCUGGACUGACUCUUCGCCAGCGCAUAGUCUAGCA
(((..((((.((((((((...((((.(....)....((((...(.....)...)))).))))...))))))))))))))).....(((((((((......((....))..))))))))). ( -32.80)
>DroAna_CAF1 1510 120 - 1
GCACCUUCUCGUUGUACCAGGGUAGCGAAGACAUCAACACAAAGAAUGUAGUUGUUCCCUGCGAAUGUGCUACAAAAUGAAGCGAGUUCGAUUUGCUUUCCACAAGCGCAUAAUCGAGCA
((...............(((((.(((((..(((((........).))))..))))))))))((((((((((.......(((((((((...))))))))).....)))))))..))).)). ( -33.70)
>DroEre_CAF1 43824 120 - 1
GCAACUUUUCGUUGUACAAAGGCAGAGAAGACAUAAGAACGAAAAAUGUCGUGGUGCCCUGCGAGUGUGCAACGAAAUGCAAAGAGCUGGACUGACUCUCCUCCAGCGCAUAGUCCAGCA
(((...((((((((((((...((((.(..(((((...........)))))......).))))...))))))))))))))).....(((((((((.(.((.....)).)..))))))))). ( -42.10)
>DroYak_CAF1 38361 120 - 1
GCAACUUCUCGUUGUACAAAGGCAGAGAAGACAUAAGUACGAAAAACGUCGUGGUGCCUUGCGAAUGUGCAACAAAAUGCAAAGAGUUUGACUGACUCUCCGCUAGCGCAUAGUCCAGCA
((...((((((((.......))).)))))(((.....(((((......)))))((((((.(((....((((......)))).((((((.....)))))).))).)).)))).)))..)). ( -32.20)
>consensus
GCAACUUCUCGUUGUACAAAGGCAGAGAAGACAUAAGUACAAAAAACGUCGUGGUGCCCUGCGAAUGUGCAACAAAAUGCAAAGAGCUGGACUGACUCUCCGCCAGCGCAUAGUCCAGCA
..........((((((((...((((.(....(((................)))...).))))...))))))))............(((((((((...((.....))....))))))))). (-22.19 = -21.94 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,170,728 – 22,170,848
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.89
Mean single sequence MFE -34.73
Consensus MFE -26.02
Energy contribution -25.53
Covariance contribution -0.50
Combinations/Pair 1.21
Mean z-score -1.90
Structure conservation index 0.75
SVM decision value 0.72
SVM RNA-class probability 0.832467
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22170728 120 - 22407834
UCACGCAUGUAAGCUAUGGGCGCCAAUAGGUGCACGGAACGCAACUUUUCGUUGUACAAAGGCAGAGAAGACAUAAGUACAAAGAACGCCGUGGUACCCUGCGAGUGUGCAACAAAAUGC
....(((..(..((...(((..(((...((((..(.(.((.....(((((.((((......)))).))))).....)).)...)..)))).)))..))).))..)..))).......... ( -32.40)
>DroAna_CAF1 1550 120 - 1
UUUCGCAUAUACGCAAUGGGCGCAAGAAGGUGAACAGAUCGCACCUUCUCGUUGUACCAGGGUAGCGAAGACAUCAACACAAAGAAUGUAGUUGUUCCCUGCGAAUGUGCUACAAAAUGA
....((((((.((((.(((((((.((((((((.........)))))))).).))).)))(((.(((((..(((((........).))))..)))))))))))).)))))).......... ( -40.10)
>DroEre_CAF1 43864 120 - 1
UAACGCAUGUAAGCUAUAGGCGCCAAUAAGUGAACGGAACGCAACUUUUCGUUGUACAAAGGCAGAGAAGACAUAAGAACGAAAAAUGUCGUGGUGCCCUGCGAGUGUGCAACGAAAUGC
....(((..(..((....(((((((....((((((((((.......))))))).)))............(((((...........))))).)))))))..))..)..))).......... ( -31.30)
>DroYak_CAF1 38401 120 - 1
UAUCGCAUGUAAGCUAUAGGCGCCAAAAGGUGAACGGAACGCAACUUCUCGUUGUACAAAGGCAGAGAAGACAUAAGUACGAAAAACGUCGUGGUGCCUUGCGAAUGUGCAACAAAAUGC
....((((((..((...((((((((..(.((...((..((....(((((((((.......))).))))))......)).))....)).)..)))))))).))..)))))).......... ( -35.10)
>consensus
UAACGCAUGUAAGCUAUAGGCGCCAAAAGGUGAACGGAACGCAACUUCUCGUUGUACAAAGGCAGAGAAGACAUAAGUACAAAAAACGUCGUGGUGCCCUGCGAAUGUGCAACAAAAUGC
....((((((..((...((((((((....(((.......)))..((((((..(((......))))))))).....................)))))))).))..)))))).......... (-26.02 = -25.53 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:41 2006