Locus 2384

Sequence ID 2L_DroMel_CAF1
Location 6,482,653 – 6,482,838
Length 185
Max. P 0.993865
window3842 window3843

overview

Window 2

Location 6,482,653 – 6,482,771
Length 118
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 77.26
Mean single sequence MFE -41.00
Consensus MFE -24.06
Energy contribution -24.25
Covariance contribution 0.19
Combinations/Pair 1.31
Mean z-score -2.26
Structure conservation index 0.59
SVM decision value 1.32
SVM RNA-class probability 0.941578
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6482653 118 - 22407834
CUUUCCAGGCAAUGAGCCAUUCCGUUGGUUCUGUUGCUGCUGCAAUUGAAUGCUCACGGGUCUAAGUGGCUGUUGCUGCUGCAACGAUACCUGCUGCAAUUGGCUAAUAGAAGCUAUA
.......((((((.(((((((((((.(((((.(((((....))))).))..))).))))).....))))))))))))((.(((........))).))...(((((......))))).. ( -38.00)
>DroSec_CAF1 5080 109 - 1
CUCCGUAGGCAAUGGGCCACCCA---------GUUGCUGCUGCAAUUGAAUGCUCACCGGUCUAAGUGGCUGUUGCUGCUGCAACGGUAGCUGAUUUAUUUGGCUAACAGAAGCCAUA
.....(((((..(((((....((---------(((((....)))))))...)))))...))))).(((((((((((....)))))(.((((..(.....)..)))).)...)))))). ( -41.40)
>DroSim_CAF1 5376 118 - 1
CUGUGUAGGCAAUGGGCCAUUCCGUUGGAUCUGUUGCUGCUGCAAUUGAAUGCUCACCGGUCUAAGUGGCUGUUGCUGCUGCAAUGGUAGCUGAUUUAUUUGGCUAACAGAAGCCAUA
.......((((((((((((......))).)))))))))(((((.((((...((.((.(((((.....))))).))..))..)))).))))).........(((((......))))).. ( -39.30)
>DroYak_CAF1 4989 118 - 1
UUGCGUAGCCAAUUGGACACCAAUUGGCUUCUGUGGCUGCUGCAGCCGAAUACCCACCGGUCUAAGUGGCUGCUGCUGUUGCACCUGUAUCUGCUGCAAUUGACCCAGAGUAGCUAUA
....(.((((((((((...)))))))))).)(((((((((((((((((...(((....))).....)))))))..(.((((((.(.......).)))))).)......)))))))))) ( -45.30)
>consensus
CUGCGUAGGCAAUGGGCCACCCAGUUGGUUCUGUUGCUGCUGCAAUUGAAUGCUCACCGGUCUAAGUGGCUGUUGCUGCUGCAACGGUAGCUGAUGCAAUUGGCUAACAGAAGCCAUA
.......(((..(((((((...........(((((((.((.(((((.....((.(((........))))).))))).)).))))))).............)))))..))...)))... (-24.06 = -24.25 +   0.19)

alignment

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secondary structure

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dotplot

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Window 3

Location 6,482,733 – 6,482,838
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 71.43
Mean single sequence MFE -40.43
Consensus MFE -25.71
Energy contribution -27.17
Covariance contribution 1.46
Combinations/Pair 1.22
Mean z-score -1.91
Structure conservation index 0.64
SVM decision value 2.43
SVM RNA-class probability 0.993865
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6482733 105 - 22407834
UAGGCAACGGCCCACGUGGUAGCUUCUCUUGCUGCGCAGGCACUGGGCAUUCCAGUGGCUUCUGUUGCUUUCCAGGCAAUGAGCCAUUCCGUUGGUUCUGUUGCU
.(((((((((.....(((.((((.......)))))))((.((((((.....)))))).)).)))))))))....((((((((((((......)))))).)))))) ( -43.10)
>DroSec_CAF1 5160 96 - 1
UAGGCAAUGGGCCCACCAGUGGCACGUCUAGCUCCGUAGGCAAUGGGCCACGCAGUAUCUCGUCUGGCUCCGUAGGCAAUGGGCCACCCA---------GUUGCU
..((((((.((((((....((.(..(((((......))))).((((((((.((........)).)))).)))).).)).)))))).....---------)))))) ( -36.30)
>DroSim_CAF1 5456 105 - 1
UAGGCAAUGGCCCACGUGGUAGCUUCCCUUGCUGCGUAGGAACUGGGCAUCCCAGUGGCUUCUGUUGCUGUGUAGGCAAUGGGCCAUUCCGUUGGAUCUGUUGCU
..((((((((.(((((..((((......))))..))).(((((((((...))))))(((..((((((((.....)))))))))))..)))...))..)))))))) ( -41.90)
>consensus
UAGGCAAUGGCCCACGUGGUAGCUUCUCUUGCUGCGUAGGCACUGGGCAUCCCAGUGGCUUCUGUUGCUCUGUAGGCAAUGGGCCAUUCCGUUGG_UCUGUUGCU
..((((((.((((((.(((((((.......))))).)).)...)))))......(((((((..((((((.....)))))))))))))............)))))) (-25.71 = -27.17 +   1.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:48 2006