Locus 3887

Sequence ID 2L_DroMel_CAF1
Location 11,378,045 – 11,378,182
Length 137
Max. P 0.921871
window6115 window6116

overview

Window 5

Location 11,378,045 – 11,378,143
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -30.88
Consensus MFE -18.39
Energy contribution -20.45
Covariance contribution 2.06
Combinations/Pair 1.04
Mean z-score -3.27
Structure conservation index 0.60
SVM decision value 1.14
SVM RNA-class probability 0.921871
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11378045 98 + 22407834
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUUAAAGCCAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCAACUGC---------------UGCAACUGC-------AAC
.((((((.(..((..((.((....))))..))..).))))))..(((.((((((((((......))))))))))(((((((.....---------------)))))))))-------).. ( -34.10)
>DroSec_CAF1 95120 89 + 1
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUUAAAGCCAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCA------------------------ACUGC-------AAC
.((((((.(..((..((.((....))))..))..).))))))......((((((((((......)))))))))).(((((.------------------------...))-------))) ( -28.90)
>DroSim_CAF1 100045 89 + 1
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUUAAAGCCAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCA------------------------ACUGC-------AAC
.((((((.(..((..((.((....))))..))..).))))))......((((((((((......)))))))))).(((((.------------------------...))-------))) ( -28.90)
>DroEre_CAF1 98634 95 + 1
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUUAAAGCCAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCAACU------------------GCAACUGC-------AAC
.((((((.(..((..((.((....))))..))..).))))))..(((.((((((((((......))))))))))((((((....------------------))))))))-------).. ( -33.30)
>DroYak_CAF1 97879 76 + 1
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUUAAAGCCAACUG-------------CAAAAUGCAUUUGCUAGUUGCAACU------------------------GC-------AAC
.((((((.(..((..((.((....))))..))..).))))))....-------------.....((((.((((.....)))).)------------------------))-------).. ( -20.00)
>DroAna_CAF1 85070 120 + 1
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUCAAAGCCAACUGCCGGCGAGUGCAACAAAAUGCAUUUUCCAGUUGCAACAGCCCCAGCCAGAGGAACUGCAACUGCGGCAGGUAAC
.((((((....((..((.((....))))..))....)))))).(((((((.(((((((......))))))).))(((((((....((.(.....).))...)))))))..)))))..... ( -40.10)
>consensus
AUGGCUUAAUUUGUUAGACGUUAUCGCUUCCGCUUAAAGCCAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCAACU_____________________ACUGC_______AAC
.((((((.(..((..((.((....))))..))..).))))))..(((.((((((((((......))))))))))....)))....................................... (-18.39 = -20.45 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,378,085 – 11,378,182
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 81.06
Mean single sequence MFE -31.98
Consensus MFE -17.28
Energy contribution -20.08
Covariance contribution 2.80
Combinations/Pair 1.10
Mean z-score -2.28
Structure conservation index 0.54
SVM decision value 0.71
SVM RNA-class probability 0.829161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11378085 97 + 22407834
CAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCAACUGCUGCAACUGCAACUUGUUCUGUGCUUUAAGGGGUGAAGUGAGGGGCGGACAG
...(((((((((((((((......))))))))))(((((((.....))))))).......(((((.(((((((.....))))))).))))))).))) ( -34.70)
>DroSec_CAF1 95160 88 + 1
CAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCA---------ACUGCAACUUGUUCUGUGCUUUAAGGGGGGAAGUGAGGGGUGGACAG
...(..((((((((((((......))))))))))((((((.---------...))))))..((((.(.(.....).).))))......))..).... ( -29.30)
>DroSim_CAF1 100085 88 + 1
CAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCA---------ACUGCAACUUGUUCUGUGCUUUAAGGGGGGAAGUGAGGGGUGGACAG
...(..((((((((((((......))))))))))((((((.---------...))))))..((((.(.(.....).).))))......))..).... ( -29.30)
>DroEre_CAF1 98674 92 + 1
CAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCAACU---GCAACUGCAACUCGUUCUCUGCUCCAGCGGGG--AGUGAGGGGGGCACAG
....((((((((((((((......))))))))))((((((....---)))))).(..((((((((((((....))))))--))))))..)))))... ( -43.40)
>DroYak_CAF1 97919 75 + 1
CAACUG-------------CAAAAUGCAUUUGCUAGUUGCAACU---------GCAACUUGUUCUGGUCUCCAAGGGGGGCGGUGAGGGGUGGACAG
((((((-------------((((.....))))).)))))...(.---------.(..(((...(((.((((....)))).))).)))..)..).... ( -23.20)
>consensus
CAACUGCCGGCGAGUGCAACAAAAUGCAUUUGCUAGUUGCAACU______ACUGCAACUUGUUCUGUGCUUUAAGGGGGGAAGUGAGGGGUGGACAG
...(((((((((((((((......))))))))))(((((((...........)))))))..(((....((((....))))....))).))))).... (-17.28 = -20.08 +   2.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:46 2006