Locus 6439

Sequence ID 2L_DroMel_CAF1
Location 18,095,503 – 18,095,600
Length 97
Max. P 0.983374
window10285 window10286

overview

Window 5

Location 18,095,503 – 18,095,600
Length 97
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 78.00
Mean single sequence MFE -17.39
Consensus MFE -8.85
Energy contribution -9.68
Covariance contribution 0.83
Combinations/Pair 1.18
Mean z-score -1.93
Structure conservation index 0.51
SVM decision value 0.19
SVM RNA-class probability 0.624485
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18095503 97 + 22407834
AAAAAGUGACUG-------AAAUCGUAAAGUAAGUGAAACUGCAGACAUAUUUAAUUAUAAAUGCAGUUCGACUUUGCUUUGGAAGCGAAAGAAAAAUAAAAGA-
............-------...(((((((((((((..(((((((...(((......)))...)))))))..)).)))))))....))))...............- ( -19.00)
>DroPse_CAF1 21905 105 + 1
AAAAACCCAUAGAACCGUAGAGCUGUGAAGUAAGUAAAACUCCAGACAUAUUUAAUUAUGAAUGCAGCAAAACUUUCAAAGAGCAGACAGAGAGAAAUGGAAGAC
......((((...........((((((.(((.......))).)...((((......))))...)))))....(((((............)))))..))))..... ( -15.70)
>DroSec_CAF1 8663 96 + 1
A-AAAGUGACUG-------AAACCGUAAAGUAAGUGAAACUGCAGACAUAUUUAUUUUUAAAUGCAGUUCGACUUUGCUUUGGAAGCAAAAGAAAAAUAAAAGA-
.-...((..(..-------((...(((((((...((((.(((((..................))))))))))))))))))..)..)).................- ( -16.17)
>DroSim_CAF1 8678 97 + 1
AAAAAGUGACUG-------AAACCGUAAAGUAAGUGAAACUGCAGACAUAUUUAAUUAUAAAUGCAGUUCGACUUUGCUUUGGAAGCAAAAGAAAAAUAAAAGA-
.....((..(..-------((...(((((((...((((.(((((...(((......)))...))))))))))))))))))..)..)).................- ( -18.00)
>DroEre_CAF1 16675 97 + 1
AAAAAGUGACAG-------AAGCCGUAAAGUAAGUGAAACUGCAGACAUAUUUAAUUAUAAAUGCAGUUCAACUUCGCUUCGGAAGCGAAAGAAAAAUAAAAGU-
............-------...(((..((((((((..(((((((...(((......)))...)))))))..)))).)))))))...(....)............- ( -19.80)
>DroPer_CAF1 22052 105 + 1
AAAAACCCAUAGAACCGUAGAGCUGUGAAGUAAGUAAAACUCCAGACAUAUUUAAUUAUGAAUGCAGCAAAACUUUCAAAGAGCAGACAGAGAGAAAUGGAAGAC
......((((...........((((((.(((.......))).)...((((......))))...)))))....(((((............)))))..))))..... ( -15.70)
>consensus
AAAAAGUGACAG_______AAACCGUAAAGUAAGUGAAACUGCAGACAUAUUUAAUUAUAAAUGCAGUUCAACUUUGCUUUGGAAGCAAAAGAAAAAUAAAAGA_
......................(((......((((..(((((((...(((......)))...)))))))..)))).....)))...................... ( -8.85 =  -9.68 +   0.83)

alignment

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secondary structure

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dotplot

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Window 6

Location 18,095,503 – 18,095,600
Length 97
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.00
Mean single sequence MFE -18.67
Consensus MFE -11.99
Energy contribution -12.72
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -2.75
Structure conservation index 0.64
SVM decision value 1.94
SVM RNA-class probability 0.983374
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18095503 97 - 22407834
-UCUUUUAUUUUUCUUUCGCUUCCAAAGCAAAGUCGAACUGCAUUUAUAAUUAAAUAUGUCUGCAGUUUCACUUACUUUACGAUUU-------CAGUCACUUUUU
-.................(((.....))).((((.((((((((..((((......))))..)))))))).)))).......(((..-------..)))....... ( -18.00)
>DroPse_CAF1 21905 105 - 1
GUCUUCCAUUUCUCUCUGUCUGCUCUUUGAAAGUUUUGCUGCAUUCAUAAUUAAAUAUGUCUGGAGUUUUACUUACUUCACAGCUCUACGGUUCUAUGGGUUUUU
....(((((......((((..(((...(((((((...(((.((..((((......))))..)).)))...)))...)))).)))...))))....)))))..... ( -20.10)
>DroSec_CAF1 8663 96 - 1
-UCUUUUAUUUUUCUUUUGCUUCCAAAGCAAAGUCGAACUGCAUUUAAAAAUAAAUAUGUCUGCAGUUUCACUUACUUUACGGUUU-------CAGUCACUUU-U
-................((((.....))))((((.((((((((..((..........))..)))))))).))))............-------..........-. ( -14.30)
>DroSim_CAF1 8678 97 - 1
-UCUUUUAUUUUUCUUUUGCUUCCAAAGCAAAGUCGAACUGCAUUUAUAAUUAAAUAUGUCUGCAGUUUCACUUACUUUACGGUUU-------CAGUCACUUUUU
-................((((.....))))((((.((((((((..((((......))))..)))))))).))))............-------............ ( -17.80)
>DroEre_CAF1 16675 97 - 1
-ACUUUUAUUUUUCUUUCGCUUCCGAAGCGAAGUUGAACUGCAUUUAUAAUUAAAUAUGUCUGCAGUUUCACUUACUUUACGGCUU-------CUGUCACUUUUU
-..............((((((.....))))))((.((((((((..((((......))))..)))))))).)).........(((..-------..)))....... ( -21.70)
>DroPer_CAF1 22052 105 - 1
GUCUUCCAUUUCUCUCUGUCUGCUCUUUGAAAGUUUUGCUGCAUUCAUAAUUAAAUAUGUCUGGAGUUUUACUUACUUCACAGCUCUACGGUUCUAUGGGUUUUU
....(((((......((((..(((...(((((((...(((.((..((((......))))..)).)))...)))...)))).)))...))))....)))))..... ( -20.10)
>consensus
_UCUUUUAUUUUUCUUUCGCUUCCAAAGCAAAGUCGAACUGCAUUUAUAAUUAAAUAUGUCUGCAGUUUCACUUACUUUACGGCUU_______CAGUCACUUUUU
..............................((((.((((((((..((((......))))..)))))))).))))............................... (-11.99 = -12.72 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:16 2006