Locus 3289

Sequence ID 3L_DroMel_CAF1
Location 9,646,141 – 9,646,239
Length 98
Max. P 0.969249
window5116 window5117

overview

Window 6

Location 9,646,141 – 9,646,239
Length 98
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 79.16
Mean single sequence MFE -34.15
Consensus MFE -19.36
Energy contribution -19.95
Covariance contribution 0.59
Combinations/Pair 1.10
Mean z-score -2.87
Structure conservation index 0.57
SVM decision value 1.64
SVM RNA-class probability 0.969249
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9646141 98 + 23771897
UGUGGGGGUGUGGCA-AGAACACGCCCCAAAAAAAAAAACUCAAAUUGGUU--AGAGAA------ACGAGUUCCCUUUAUGGUCCCA---AUUCCGGACUUGGGGACUUG
....((((((((...-....))))))))...........(((.........--.)))..------.(((((((((.....(((((..---.....))))).))))))))) ( -36.00)
>DroSec_CAF1 41703 102 + 1
UGUGGGGGUGUGGCA-AGAACACGCCCCGAA-----AAACUCAAAUUGGUU--AGAGAAACCAAAACGAGCUCCCUUUAUGGUCCCAAUAAUUCUGGACUUGGGGACUUG
....((((((((...-....))))))))...-----.........((((((--.....))))))..((((.(((((....(((((..........))))).))))))))) ( -37.00)
>DroSim_CAF1 44249 102 + 1
UGUGGGGGUGUGGCA-AGAACACGCCCCGAA-----AAACUCAAAUUGGUU--AGAGAAACCAAAACGAGCUCCCUUUAUGGUCCCAAUAAUUCUGGACUUGGGGACUUG
....((((((((...-....))))))))...-----.........((((((--.....))))))..((((.(((((....(((((..........))))).))))))))) ( -37.00)
>DroEre_CAF1 41515 95 + 1
UGUGGGGGUGUGGCA-AGAACACGCCCCGAA-----AAACUCAAAUUGGGA--AGAGAAACCAACACGAGCUCCCUUUAUGGGCCCA---ACUCUGGACUUGGGGA----
.(((((((((((...-....))))))))...-----.........((((..--.......))))))).....(((.....)))((((---(........)))))..---- ( -31.30)
>DroYak_CAF1 41911 95 + 1
UGUGGGGGUGUGGCA-AGAACACGCCCCGAA-----AAACUCAAUUUGGGA--AGAGGAAACAAAACGAGCUCCCUUUAUGGGCUCC---AUUCUGGACUUGGGGA----
....((((((((...-....))))))))...-----...(((((.((.(((--(..(....).....((((((.......)))))).---.)))).)).)))))..---- ( -35.30)
>DroAna_CAF1 54092 102 + 1
UGUGGGGGUGUGGCAGAAAACAGGCCCAAAA--AUAAAGCUUAAAAUAGCACACAAGCAGCCUAAAAGAGCUCCCUUCAUGAGCCCAU--GUUGGGUACUUUGGAA----
((((.((((.((........)).))))....--.....(((......))).))))...........((((..(((..((((....)))--)..)))..))))....---- ( -28.30)
>consensus
UGUGGGGGUGUGGCA_AGAACACGCCCCGAA_____AAACUCAAAUUGGUA__AGAGAAACCAAAACGAGCUCCCUUUAUGGGCCCA___AUUCUGGACUUGGGGA____
....((((((((........))))))))...........(((............)))..............(((((....((.((..........)).)).))))).... (-19.36 = -19.95 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 9,646,141 – 9,646,239
Length 98
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 79.16
Mean single sequence MFE -28.79
Consensus MFE -16.59
Energy contribution -17.92
Covariance contribution 1.34
Combinations/Pair 1.21
Mean z-score -1.90
Structure conservation index 0.58
SVM decision value 0.44
SVM RNA-class probability 0.738610
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9646141 98 - 23771897
CAAGUCCCCAAGUCCGGAAU---UGGGACCAUAAAGGGAACUCGU------UUCUCU--AACCAAUUUGAGUUUUUUUUUUUGGGGCGUGUUCU-UGCCACACCCCCACA
...(..(((((........)---))))..)..((((((((((((.------......--........))))))))))))..(((((.((((...-....))))))))).. ( -27.06)
>DroSec_CAF1 41703 102 - 1
CAAGUCCCCAAGUCCAGAAUUAUUGGGACCAUAAAGGGAGCUCGUUUUGGUUUCUCU--AACCAAUUUGAGUUU-----UUCGGGGCGUGUUCU-UGCCACACCCCCACA
...(..(((((...........)))))..).....(((((((((..((((((.....--))))))..)))))))-----)).((((.((((...-....))))))))... ( -33.30)
>DroSim_CAF1 44249 102 - 1
CAAGUCCCCAAGUCCAGAAUUAUUGGGACCAUAAAGGGAGCUCGUUUUGGUUUCUCU--AACCAAUUUGAGUUU-----UUCGGGGCGUGUUCU-UGCCACACCCCCACA
...(..(((((...........)))))..).....(((((((((..((((((.....--))))))..)))))))-----)).((((.((((...-....))))))))... ( -33.30)
>DroEre_CAF1 41515 95 - 1
----UCCCCAAGUCCAGAGU---UGGGCCCAUAAAGGGAGCUCGUGUUGGUUUCUCU--UCCCAAUUUGAGUUU-----UUCGGGGCGUGUUCU-UGCCACACCCCCACA
----..(((((.(....).)---))))(((.....)))((((((.(((((.......--..))))).)))))).-----...((((.((((...-....))))))))... ( -31.80)
>DroYak_CAF1 41911 95 - 1
----UCCCCAAGUCCAGAAU---GGAGCCCAUAAAGGGAGCUCGUUUUGUUUCCUCU--UCCCAAAUUGAGUUU-----UUCGGGGCGUGUUCU-UGCCACACCCCCACA
----..........((((((---((..(((.....)))..).)))))))....(((.--.........)))...-----...((((.((((...-....))))))))... ( -24.90)
>DroAna_CAF1 54092 102 - 1
----UUCCAAAGUACCCAAC--AUGGGCUCAUGAAGGGAGCUCUUUUAGGCUGCUUGUGUGCUAUUUUAAGCUUUAU--UUUUGGGCCUGUUUUCUGCCACACCCCCACA
----.....(((((.((...--..((((((.......)))))).....)).)))))(((((((......))).....--.....(((..(....).)))))))....... ( -22.40)
>consensus
____UCCCCAAGUCCAGAAU___UGGGACCAUAAAGGGAGCUCGUUUUGGUUUCUCU__AACCAAUUUGAGUUU_____UUCGGGGCGUGUUCU_UGCCACACCCCCACA
.....(((................))).((.....))(((((((..((((...........))))..)))))))........((((.((((........))))))))... (-16.59 = -17.92 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:01 2006