Locus 6417

Sequence ID 3L_DroMel_CAF1
Location 17,198,596 – 17,198,695
Length 99
Max. P 0.847697
window10276 window10277

overview

Window 6

Location 17,198,596 – 17,198,695
Length 99
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 83.52
Mean single sequence MFE -30.84
Consensus MFE -21.80
Energy contribution -23.46
Covariance contribution 1.66
Combinations/Pair 1.03
Mean z-score -2.08
Structure conservation index 0.71
SVM decision value 0.78
SVM RNA-class probability 0.847697
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17198596 99 + 23771897
---------AACUCCCUGAGCAAGUAGUACCUUUUGGUACAACUAAAGUGCAUCACUGGUGGCAGUUGCAACAGUUUCUGGUGUUUCAGUUGCAGUUGUUGCACCUGC
---------..(.((.(((((((((.(((((....))))).)))....))).)))..)).)((((.(((((((((..((((....))))..))...))))))).)))) ( -33.70)
>DroSec_CAF1 83110 98 + 1
AAAAAAAACAGCUCCCUGAGCAAGUAGUG----------CACCUAAAGUGCAUCCCUGGUGGCAGUUGCAACAGUUUCUGGUGUUUCAGUUGCAGUUGUUGCACCUGC
..........((((...)))).((..(((----------(((.....))))))..))....((((.(((((((((..((((....))))..))...))))))).)))) ( -31.90)
>DroSim_CAF1 75422 108 + 1
AAAAAAAAGAAAUCCCUGAGCAAGUAGUACCCUUUGGUACAACUAAAGUGCAUCACUGGUGGCAGUUGCAACAGUUUCUGGUGUUUCAGUUGCAGUUGUUGCACCUGC
...........(((..(((((((((.(((((....))))).)))....))).)))..))).((((.(((((((((..((((....))))..))...))))))).)))) ( -31.70)
>DroEre_CAF1 85732 102 + 1
------UUUAACUAACUGAGAAAAUAAUACCUUUUGGUACAACUAAAGGGCAUCACUGGUUGCAGUUGCAAUAGUUUCUGGUGUUUCAGUUGCAGUUGUUGCACCUGC
------.......((((((((........((((((((.....))))))))(((((...(((((....)))))......)))))))))))))((((.((...)).)))) ( -26.60)
>DroYak_CAF1 88155 102 + 1
------UUCAACUCUCUGAGCAAGUAGUACCUUUUGGUACAACCAAAGUGCAUCACUGGUUGCAGUUGCAAUAGUUUCUGGUGUUGCAGUCGCAGUUGUUGCACCUGC
------.(((......)))(((.((.(((((....))))).))....(((((....(..((((..((((((((.(....).))))))))..))))..).))))).))) ( -30.30)
>consensus
______AACAACUCCCUGAGCAAGUAGUACCUUUUGGUACAACUAAAGUGCAUCACUGGUGGCAGUUGCAACAGUUUCUGGUGUUUCAGUUGCAGUUGUUGCACCUGC
.................((((((((.(((((....))))).)))....))).)).......((((.(((((((((..((((....))))..))...))))))).)))) (-21.80 = -23.46 +   1.66)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,198,596 – 17,198,695
Length 99
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 83.52
Mean single sequence MFE -27.92
Consensus MFE -20.14
Energy contribution -21.36
Covariance contribution 1.22
Combinations/Pair 1.11
Mean z-score -1.95
Structure conservation index 0.72
SVM decision value 0.63
SVM RNA-class probability 0.804283
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17198596 99 - 23771897
GCAGGUGCAACAACUGCAACUGAAACACCAGAAACUGUUGCAACUGCCACCAGUGAUGCACUUUAGUUGUACCAAAAGGUACUACUUGCUCAGGGAGUU---------
((((.(((((((.......(((......)))....))))))).))))..((..(((.(((....(((.(((((....))))).))))))))).))....--------- ( -30.70)
>DroSec_CAF1 83110 98 - 1
GCAGGUGCAACAACUGCAACUGAAACACCAGAAACUGUUGCAACUGCCACCAGGGAUGCACUUUAGGUG----------CACUACUUGCUCAGGGAGCUGUUUUUUUU
((((.(((((((.......(((......)))....))))))).))))...((((..(((((.....)))----------))...))))..(((....)))........ ( -27.40)
>DroSim_CAF1 75422 108 - 1
GCAGGUGCAACAACUGCAACUGAAACACCAGAAACUGUUGCAACUGCCACCAGUGAUGCACUUUAGUUGUACCAAAGGGUACUACUUGCUCAGGGAUUUCUUUUUUUU
((((.(((((((.......(((......)))....))))))).))))..((..(((.(((....(((.(((((....))))).))))))))).))............. ( -30.60)
>DroEre_CAF1 85732 102 - 1
GCAGGUGCAACAACUGCAACUGAAACACCAGAAACUAUUGCAACUGCAACCAGUGAUGCCCUUUAGUUGUACCAAAAGGUAUUAUUUUCUCAGUUAGUUAAA------
((((.........))))((((((.........(((((..(((((((....))))..)))....)))))(((((....))))).......)))))).......------ ( -22.40)
>DroYak_CAF1 88155 102 - 1
GCAGGUGCAACAACUGCGACUGCAACACCAGAAACUAUUGCAACUGCAACCAGUGAUGCACUUUGGUUGUACCAAAAGGUACUACUUGCUCAGAGAGUUGAA------
((((.((((.....)))).)))).........((((..((((((((....))))..))))(((((((.(((((....))))).....)).)))))))))...------ ( -28.50)
>consensus
GCAGGUGCAACAACUGCAACUGAAACACCAGAAACUGUUGCAACUGCCACCAGUGAUGCACUUUAGUUGUACCAAAAGGUACUACUUGCUCAGGGAGUUGAA______
((((.(((((((.......(((......)))....))))))).))))......(((.(((....(((.(((((....))))).)))))))))................ (-20.14 = -21.36 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:55 2006