Locus 8267

Sequence ID 3R_DroMel_CAF1
Location 22,128,599 – 22,128,698
Length 99
Max. P 0.841290
window13331 window13332

overview

Window 1

Location 22,128,599 – 22,128,698
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.85
Mean single sequence MFE -31.80
Consensus MFE -23.82
Energy contribution -23.90
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -2.01
Structure conservation index 0.75
SVM decision value 0.69
SVM RNA-class probability 0.823550
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22128599 99 + 27905053
CAACGGGGAAU--------------GGGAAAUGGGAUGCAAUUGCAGUUCCCUGAACAAAUUGCACUUUGACUGCAAAAGGCAAGUUUUAGUGCCUUGCUGGAGG-------GGAAGGAG
...((((((((--------------.(.((.((.....)).)).).))))))))...........((((..((.((.((((((........))))))..)).)).-------.))))... ( -29.60)
>DroSec_CAF1 58678 99 + 1
CAACGGGGAAU--------------GGGAAAUGGGAUGCAAUUGCAGUUCCCUGAACAAAUUGCACUUUGACUGCAAAAGGCAAGUUUUAGUGCCUCGCUGGAGG-------GGCAGGAG
...((((((((--------------.(.((.((.....)).)).).))))))))........(((((..((((((.....)).))))..)))))(((.(((....-------..)))))) ( -30.50)
>DroSim_CAF1 51206 99 + 1
CAACGGGGAAU--------------GGGAAAUGGGAUGCAAUUGCAGUUCCCUGAACAAAUUGCACUUUGACUGCAAAAGGCAAGUUUUAGUGCCUCGCUGGAGG-------GGCAGGAG
...((((((((--------------.(.((.((.....)).)).).))))))))........(((((..((((((.....)).))))..)))))(((.(((....-------..)))))) ( -30.50)
>DroEre_CAF1 51527 113 + 1
CAGCGGGGAAUGGGCAAUGUGAAAUGGGAAAUGGGAUGCAAUUGCAGUUCCCUGAACAAAUUGCACUUUGACUGCAAAAGGCAAGUUUUAGUGCCCCGCUGGAGG-------GGAAGCAG
((((((((.....(((((.((....(((((......(((....))).)))))....)).)))))(((..((((((.....)).))))..))).))))))))....-------........ ( -40.40)
>DroYak_CAF1 51513 108 + 1
CAACGGGGAAUGGGGAAUGGG-AAUGGGAAAUAGGAUGCAAUUGGAGUUCCCUGAACAAAUUGCACUUUGACUGCAAAAGGCAAGUUUUAGUGCCCCGCUGGAGG-------GAAA----
((.((((.(((..(....(((-(((....(((........)))...))))))....)..)))(((((..((((((.....)).))))..))))))))).))....-------....---- ( -29.30)
>DroAna_CAF1 99818 104 + 1
C-AUGGGGGAU--------------A-GAAAUUGCUUGCAAUUGCAGUUCCCCGAACAAAUUGCACUUUGACGGCAAAAGGCAAGUUUUAGUGCCCUAAAGGAUGCCGAAAAGGGAAACG
.-.((((((((--------------.-(.(((((....))))).).))))))))...........((((..(((((...((((........))))(....)..))))).))))(....). ( -30.50)
>consensus
CAACGGGGAAU______________GGGAAAUGGGAUGCAAUUGCAGUUCCCUGAACAAAUUGCACUUUGACUGCAAAAGGCAAGUUUUAGUGCCCCGCUGGAGG_______GGAAGGAG
((.((((..................(((((......(((....))).)))))..........(((((..((((((.....)).))))..))))))))).))................... (-23.82 = -23.90 +   0.08)

alignment

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secondary structure

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dotplot

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Window 2

Location 22,128,599 – 22,128,698
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.85
Mean single sequence MFE -25.25
Consensus MFE -18.13
Energy contribution -17.80
Covariance contribution -0.33
Combinations/Pair 1.24
Mean z-score -2.22
Structure conservation index 0.72
SVM decision value 0.75
SVM RNA-class probability 0.841290
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22128599 99 - 27905053
CUCCUUCC-------CCUCCAGCAAGGCACUAAAACUUGCCUUUUGCAGUCAAAGUGCAAUUUGUUCAGGGAACUGCAAUUGCAUCCCAUUUCCC--------------AUUCCCCGUUG
........-------....((((...(((((...(((.((.....)))))...)))))..........((((..(((....))))))).......--------------.......)))) ( -21.00)
>DroSec_CAF1 58678 99 - 1
CUCCUGCC-------CCUCCAGCGAGGCACUAAAACUUGCCUUUUGCAGUCAAAGUGCAAUUUGUUCAGGGAACUGCAAUUGCAUCCCAUUUCCC--------------AUUCCCCGUUG
((((((..-------....))).)))(((((...(((.((.....)))))...)))))..........((((..(((....))))))).......--------------........... ( -22.90)
>DroSim_CAF1 51206 99 - 1
CUCCUGCC-------CCUCCAGCGAGGCACUAAAACUUGCCUUUUGCAGUCAAAGUGCAAUUUGUUCAGGGAACUGCAAUUGCAUCCCAUUUCCC--------------AUUCCCCGUUG
((((((..-------....))).)))(((((...(((.((.....)))))...)))))..........((((..(((....))))))).......--------------........... ( -22.90)
>DroEre_CAF1 51527 113 - 1
CUGCUUCC-------CCUCCAGCGGGGCACUAAAACUUGCCUUUUGCAGUCAAAGUGCAAUUUGUUCAGGGAACUGCAAUUGCAUCCCAUUUCCCAUUUCACAUUGCCCAUUCCCCGCUG
........-------....((((((((((((...(((.((.....)))))...)))))..........((((..(((....))))))).........................))))))) ( -32.00)
>DroYak_CAF1 51513 108 - 1
----UUUC-------CCUCCAGCGGGGCACUAAAACUUGCCUUUUGCAGUCAAAGUGCAAUUUGUUCAGGGAACUCCAAUUGCAUCCUAUUUCCCAUU-CCCAUUCCCCAUUCCCCGUUG
----....-------....((((((((((((...(((.((.....)))))...)))))..........(((((.................)))))...-..............))))))) ( -25.73)
>DroAna_CAF1 99818 104 - 1
CGUUUCCCUUUUCGGCAUCCUUUAGGGCACUAAAACUUGCCUUUUGCCGUCAAAGUGCAAUUUGUUCGGGGAACUGCAAUUGCAAGCAAUUUC-U--------------AUCCCCCAU-G
.((....((((.(((((......((((((........)))))).)))))..)))).)).........(((((...(.(((((....))))).)-.--------------.)))))...-. ( -27.00)
>consensus
CUCCUUCC_______CCUCCAGCGAGGCACUAAAACUUGCCUUUUGCAGUCAAAGUGCAAUUUGUUCAGGGAACUGCAAUUGCAUCCCAUUUCCC______________AUUCCCCGUUG
...................((((((((((........))))))...........((((((((....(((....))).))))))))...............................)))) (-18.13 = -17.80 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:19 2006