Locus 6544

Sequence ID 2R_DroMel_CAF1
Location 20,457,803 – 20,457,902
Length 99
Max. P 0.710145
window10421 window10422

overview

Window 1

Location 20,457,803 – 20,457,902
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 78.62
Mean single sequence MFE -36.88
Consensus MFE -21.20
Energy contribution -21.09
Covariance contribution -0.11
Combinations/Pair 1.26
Mean z-score -1.77
Structure conservation index 0.57
SVM decision value 0.33
SVM RNA-class probability 0.689559
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20457803 99 + 20766785
CCUUAAAUGGGGAAUACCACAUCCCACCUGAGGAGG------AGGUGGAGUACGAGGAAGUUGGCGCUUUGCUGCUUCGGCAUGCACCACCCAUUGCAGAACAAC
.((..((((((.....((.(..(((((((.......------)))))).)...).))....(((.((..(((((...))))).)).)))))))))..))...... ( -29.60)
>DroPse_CAF1 605 105 + 1
AGCCCAAUGGGGAGUACCACAUUCCACCCGAAGAGGAAGAUGAGGUGGAGUACGAGGAGGUGGGAGCGCUACUGUUGCGCCCCCAGCCUCCUAUAACGGACUACC
..(((....)))(((.((..((((((((((..........)).))))))))...((((((((((.((((.......)))).)))).)))))).....)))))... ( -43.80)
>DroSim_CAF1 579 99 + 1
CCUUAAAUGGGGAAUACCACAUCCCACCUGAGGAGG------AGGUGGAGUAUGAGGAAGUUGGCGCUUUGCUCCUUCGGCCUGCACCCCCCAUUGCAGAACAAC
.((..(((((((....((.((((((((((.......------)))))).).))).)).....((.((...(((.....)))..)).)))))))))..))...... ( -31.50)
>DroEre_CAF1 579 99 + 1
CCUUAAAUGGGGAAUACCACAUUCCACCUGAGGAGG------AGGUGGAGUACGAGGAAGUUGGCGCUUUGCUGCUUCGGCCUCCAGCUCCCAUUGCGGAACAAC
(((((...(((((((.....))))).))))))).((------((.(((((..(((((.(((.........))).)))))..))))).)))).............. ( -36.20)
>DroYak_CAF1 579 99 + 1
CCUUAAAUGGGGAAUAUCACAUUCCACCUGAGGAGG------AGGUGGAGUAUGAGGAAGUUGGCGCUUUGCUACUUCGACCACCACCCCCCAUUGCGGAACAAC
((...(((((((....(((.(((((((((.......------))))))))).))).(((((.(((.....))))))))..........)))))))..))...... ( -36.40)
>DroPer_CAF1 1277 105 + 1
AGCCCAAUGGGGAGUACCACAUUCCACCCGAAGAGGAAGAUGAGGUGGAGUACGAGGAGGUGGGAGCGCUACUGUUGCGCCCCCAGCCUCCUAUAACGGACUACC
..(((....)))(((.((..((((((((((..........)).))))))))...((((((((((.((((.......)))).)))).)))))).....)))))... ( -43.80)
>consensus
CCUUAAAUGGGGAAUACCACAUUCCACCUGAGGAGG______AGGUGGAGUACGAGGAAGUUGGCGCUUUGCUGCUUCGGCCUCCACCUCCCAUUGCGGAACAAC
.....(((((((........((((((((...............)))))))).(((((.(((.........))).))))).........))))))).......... (-21.20 = -21.09 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,457,803 – 20,457,902
Length 99
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.62
Mean single sequence MFE -38.17
Consensus MFE -19.46
Energy contribution -18.77
Covariance contribution -0.69
Combinations/Pair 1.39
Mean z-score -2.08
Structure conservation index 0.51
SVM decision value 0.37
SVM RNA-class probability 0.710145
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20457803 99 - 20766785
GUUGUUCUGCAAUGGGUGGUGCAUGCCGAAGCAGCAAAGCGCCAACUUCCUCGUACUCCACCU------CCUCCUCAGGUGGGAUGUGGUAUUCCCCAUUUAAGG
......((..((((((((((((.(((.......)))..))))))....((.(((.(.((((((------.......)))))))))).)).....))))))..)). ( -30.80)
>DroPse_CAF1 605 105 - 1
GGUAGUCCGUUAUAGGAGGCUGGGGGCGCAACAGUAGCGCUCCCACCUCCUCGUACUCCACCUCAUCUUCCUCUUCGGGUGGAAUGUGGUACUCCCCAUUGGGCU
...(((((((...((((((.(((((((((.......)))))))))))))))...))(((((((.............)))))))..((((......)))).))))) ( -46.82)
>DroSim_CAF1 579 99 - 1
GUUGUUCUGCAAUGGGGGGUGCAGGCCGAAGGAGCAAAGCGCCAACUUCCUCAUACUCCACCU------CCUCCUCAGGUGGGAUGUGGUAUUCCCCAUUUAAGG
......((..((((((((((((..(((....).))...))))).......(((((..((((((------.......))))))..)))))....)))))))..)). ( -38.40)
>DroEre_CAF1 579 99 - 1
GUUGUUCCGCAAUGGGAGCUGGAGGCCGAAGCAGCAAAGCGCCAACUUCCUCGUACUCCACCU------CCUCCUCAGGUGGAAUGUGGUAUUCCCCAUUUAAGG
...(((((((...(((((.(((((..(((((..((.....))...))...)))..))))).))------)))......)))))))((((......))))...... ( -30.20)
>DroYak_CAF1 579 99 - 1
GUUGUUCCGCAAUGGGGGGUGGUGGUCGAAGUAGCAAAGCGCCAACUUCCUCAUACUCCACCU------CCUCCUCAGGUGGAAUGUGAUAUUCCCCAUUUAAGG
......((..(((((((((((......(((((.((.....))..))))).(((((.(((((((------.......))))))).))))))))))))))))...)) ( -36.00)
>DroPer_CAF1 1277 105 - 1
GGUAGUCCGUUAUAGGAGGCUGGGGGCGCAACAGUAGCGCUCCCACCUCCUCGUACUCCACCUCAUCUUCCUCUUCGGGUGGAAUGUGGUACUCCCCAUUGGGCU
...(((((((...((((((.(((((((((.......)))))))))))))))...))(((((((.............)))))))..((((......)))).))))) ( -46.82)
>consensus
GUUGUUCCGCAAUGGGAGGUGGAGGCCGAAGCAGCAAAGCGCCAACUUCCUCGUACUCCACCU______CCUCCUCAGGUGGAAUGUGGUAUUCCCCAUUUAAGG
......(((((..(((((((...((((...........).))).))))))).....(((((((.............))))))).)))))................ (-19.46 = -18.77 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:28 2006