Locus 4945

Sequence ID 3L_DroMel_CAF1
Location 13,702,208 – 13,702,298
Length 90
Max. P 0.974074
window7807 window7808

overview

Window 7

Location 13,702,208 – 13,702,298
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 78.56
Mean single sequence MFE -13.57
Consensus MFE -9.67
Energy contribution -10.17
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.71
SVM decision value 0.93
SVM RNA-class probability 0.883716
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13702208 90 + 23771897
GCGGCAAACAGGAAAGUUGAUUUGUUUUGCCACAUGCAAAAAGAUUGCAAAGAAAUAGCAUAAAAAAAGAACUUAAAUAAAAAGGACGAG
((((((((((((........)))).))))))...(((((.....)))))........))............................... ( -14.60)
>DroPse_CAF1 99474 69 + 1
GCUGCAAACAGGAAAGUUGAUUUGUUUUGCUACAUGCAAAAAGAUUGCAGGGAAAUGGGAAAAAACGG---------------A------
.((((.(((......)))(((((.((((((.....)))))))))))))))..................---------------.------ ( -12.30)
>DroSec_CAF1 109436 90 + 1
GCGGCAAACAGGAAAGUUGAUUUGUUUUGCCACAUGCAAAAAGAUUGCAGAGAAAUAGCAAAAAAAAAGAACUUAAAUAGAAAGGACGAG
((((((((((((........)))).))))))...(((((.....)))))........))............................... ( -14.60)
>DroSim_CAF1 120230 90 + 1
GCGGCAAACAGGAAAGUUGAUUUGUUUUGCCACAUGCAAAAAGAUUGCAAAGAAAUAGCAAAAAAAAAGAACUUAAAUAGAAAGGACGAG
((((((((((((........)))).))))))...(((((.....)))))........))............................... ( -14.60)
>DroEre_CAF1 115663 89 + 1
GCGGCAAACAGGAAAGUUGAUUUGUUUUGCCACAUGCAAAAAGAUCGCAUAGAAAUAGGGUGAAA-AAAAACUUAAAUAAAAAGGACGAG
(.((((((((((........)))).)))))).)...........((((.((....))..))))..-........................ ( -13.00)
>DroPer_CAF1 100911 69 + 1
GCUGCAAACAGGAAAGUUGAUUUGUUUUGCUACAUGCAAAAAGAUUGCAGGGAAAUGGGAAAAAACGG---------------A------
.((((.(((......)))(((((.((((((.....)))))))))))))))..................---------------.------ ( -12.30)
>consensus
GCGGCAAACAGGAAAGUUGAUUUGUUUUGCCACAUGCAAAAAGAUUGCAGAGAAAUAGCAAAAAAAAAGAACUUAAAUA_AAAGGACGAG
(.((((((((((........)))).)))))).).(((((.....)))))......................................... ( -9.67 = -10.17 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,702,208 – 13,702,298
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 78.56
Mean single sequence MFE -13.53
Consensus MFE -11.26
Energy contribution -11.45
Covariance contribution 0.19
Combinations/Pair 1.07
Mean z-score -2.81
Structure conservation index 0.83
SVM decision value 1.72
SVM RNA-class probability 0.974074
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13702208 90 - 23771897
CUCGUCCUUUUUAUUUAAGUUCUUUUUUUAUGCUAUUUCUUUGCAAUCUUUUUGCAUGUGGCAAAACAAAUCAACUUUCCUGUUUGCCGC
................(((((..(((.((.((((((.....(((((.....))))).)))))).)).)))..)))))............. ( -13.50)
>DroPse_CAF1 99474 69 - 1
------U---------------CCGUUUUUUCCCAUUUCCCUGCAAUCUUUUUGCAUGUAGCAAAACAAAUCAACUUUCCUGUUUGCAGC
------.---------------..................(((((....((((((.....))))))......(((......)))))))). ( -10.20)
>DroSec_CAF1 109436 90 - 1
CUCGUCCUUUCUAUUUAAGUUCUUUUUUUUUGCUAUUUCUCUGCAAUCUUUUUGCAUGUGGCAAAACAAAUCAACUUUCCUGUUUGCCGC
................(((((..(((.(((((((((.....(((((.....))))).))))))))).)))..)))))............. ( -16.30)
>DroSim_CAF1 120230 90 - 1
CUCGUCCUUUCUAUUUAAGUUCUUUUUUUUUGCUAUUUCUUUGCAAUCUUUUUGCAUGUGGCAAAACAAAUCAACUUUCCUGUUUGCCGC
................(((((..(((.(((((((((.....(((((.....))))).))))))))).)))..)))))............. ( -17.00)
>DroEre_CAF1 115663 89 - 1
CUCGUCCUUUUUAUUUAAGUUUUU-UUUCACCCUAUUUCUAUGCGAUCUUUUUGCAUGUGGCAAAACAAAUCAACUUUCCUGUUUGCCGC
........................-...............((((((.....))))))((((((((.((............)))))))))) ( -14.00)
>DroPer_CAF1 100911 69 - 1
------U---------------CCGUUUUUUCCCAUUUCCCUGCAAUCUUUUUGCAUGUAGCAAAACAAAUCAACUUUCCUGUUUGCAGC
------.---------------..................(((((....((((((.....))))))......(((......)))))))). ( -10.20)
>consensus
CUCGUCCUUU_UAUUUAAGUUCUUUUUUUUUCCUAUUUCUCUGCAAUCUUUUUGCAUGUGGCAAAACAAAUCAACUUUCCUGUUUGCCGC
.........................................(((((.....))))).((((((((.((............)))))))))) (-11.26 = -11.45 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:39 2006