Locus 899

Sequence ID 3R_DroMel_CAF1
Location 3,039,029 – 3,039,125
Length 96
Max. P 0.940472
window1428 window1429

overview

Window 8

Location 3,039,029 – 3,039,125
Length 96
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 77.66
Mean single sequence MFE -21.83
Consensus MFE -12.60
Energy contribution -13.37
Covariance contribution 0.78
Combinations/Pair 1.11
Mean z-score -1.68
Structure conservation index 0.58
SVM decision value 0.31
SVM RNA-class probability 0.683810
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3039029 96 + 27905053
GGAUCAAAG-CCAAACAAUUGGCAUCCGUGUUGCCACAAAUCAAAUGCUCGUAAUCGCAACAAUGAGCAAUUGCUG----GCAUUAGUCGCGAUUGUUUGU
((((....(-((((....))))))))).((((((......................))))))(..(((((((((.(----((....))))))))))))..) ( -27.65)
>DroVir_CAF1 80674 88 + 1
-AAUCCAGA-GUAAACAAUCGG-AUUUGUGGAACCACAAAUCAAACACUCCU------AACAAUGAGAAAUCGCUC----GCAUUAGCCGCAAUUGUUUGG
-...(((((-((...(....)(-(((((((....))))))))....))))..------((((((((....))((..----((....)).)).))))))))) ( -20.70)
>DroPse_CAF1 27193 99 + 1
AAAUCAAAG-GCAAACAAUUGGAUUCCCUGCAGCCACAAAUCAAAUGCUCGUAAUCGUAACAAAGAGCAAUCGUUGGAUCGCAUUAGCCACAAUUGUUUG-
.........-.((((((((((.......(((..(((.........(((((..............))))).....)))...))).......))))))))))- ( -19.72)
>DroGri_CAF1 39647 90 + 1
-AAUCAAGAGGUAAACAAUUGGAAUCUGUGGAACCACAAAUCAAACACUCCU------AACAAUGAGAAAUCGUUC----GCAUUAGCCGCAAUUGUUUGG
-..........((((((((((.....((((....))))............((------((.(((((....))))).----...))))...)))))))))). ( -17.50)
>DroAna_CAF1 28453 96 + 1
CGAUCUGAG-CCAAACAAUUGGCAUCCGUGUAGCCACAAAUCAAAUGCUCGUAAUCGCAACAAUGAGCAAUCGCUC----ACAUUAGCCCCGAUUGUUUGG
.........-((((((((((((.....(((....)))........(((((((..........)))))))...(((.----.....))).)))))))))))) ( -25.70)
>DroPer_CAF1 27250 99 + 1
AAAUCAAAG-GCAAACAAUUGGAUUCCCUGCAGCCACAAAUCAAAUGCUCGUAAUCGUAACAAAGAGCAAUCGUUGGAUCGCAUUAGCCACAAUUGUUUG-
.........-.((((((((((.......(((..(((.........(((((..............))))).....)))...))).......))))))))))- ( -19.72)
>consensus
_AAUCAAAG_GCAAACAAUUGGAAUCCGUGCAGCCACAAAUCAAAUGCUCGUAAUCG_AACAAUGAGCAAUCGCUC____GCAUUAGCCGCAAUUGUUUGG
...........((((((((((......(((....)))........(((((..............))))).....................)))))))))). (-12.60 = -13.37 +   0.78)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,039,029 – 3,039,125
Length 96
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 77.66
Mean single sequence MFE -26.83
Consensus MFE -17.41
Energy contribution -17.94
Covariance contribution 0.53
Combinations/Pair 1.21
Mean z-score -2.00
Structure conservation index 0.65
SVM decision value 1.29
SVM RNA-class probability 0.940472
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3039029 96 - 27905053
ACAAACAAUCGCGACUAAUGC----CAGCAAUUGCUCAUUGUUGCGAUUACGAGCAUUUGAUUUGUGGCAACACGGAUGCCAAUUGUUUGG-CUUUGAUCC
.((((((((((((((.((((.----.(((....)))))))))))))))).((((((.((((((((((....)))))))..))).)))))))-.)))).... ( -33.50)
>DroVir_CAF1 80674 88 - 1
CCAAACAAUUGCGGCUAAUGC----GAGCGAUUUCUCAUUGUU------AGGAGUGUUUGAUUUGUGGUUCCACAAAU-CCGAUUGUUUAC-UCUGGAUU-
((....((((((.((....))----..))))))..........------.((((((((.((((((((....)))))))-).))).....))-)))))...- ( -23.40)
>DroPse_CAF1 27193 99 - 1
-CAAACAAUUGUGGCUAAUGCGAUCCAACGAUUGCUCUUUGUUACGAUUACGAGCAUUUGAUUUGUGGCUGCAGGGAAUCCAAUUGUUUGC-CUUUGAUUU
-((((((((((..((((..((((((....))))))((..((((.((....))))))...))....))))..).((....))))))))))).-......... ( -25.50)
>DroGri_CAF1 39647 90 - 1
CCAAACAAUUGCGGCUAAUGC----GAACGAUUUCUCAUUGUU------AGGAGUGUUUGAUUUGUGGUUCCACAGAUUCCAAUUGUUUACCUCUUGAUU-
..(((((((((.((......(----((((.((((((.......------)))))))))))(((((((....))))))))))))))))))...........- ( -21.30)
>DroAna_CAF1 28453 96 - 1
CCAAACAAUCGGGGCUAAUGU----GAGCGAUUGCUCAUUGUUGCGAUUACGAGCAUUUGAUUUGUGGCUACACGGAUGCCAAUUGUUUGG-CUCAGAUCG
(((((((((...(((.(((((----..(..(((((........)))))..)..)))))..(((((((....)))))))))).)))))))))-......... ( -31.80)
>DroPer_CAF1 27250 99 - 1
-CAAACAAUUGUGGCUAAUGCGAUCCAACGAUUGCUCUUUGUUACGAUUACGAGCAUUUGAUUUGUGGCUGCAGGGAAUCCAAUUGUUUGC-CUUUGAUUU
-((((((((((..((((..((((((....))))))((..((((.((....))))))...))....))))..).((....))))))))))).-......... ( -25.50)
>consensus
CCAAACAAUUGCGGCUAAUGC____CAACGAUUGCUCAUUGUU_CGAUUACGAGCAUUUGAUUUGUGGCUACACGGAUUCCAAUUGUUUGC_CUUUGAUU_
.((((((((((.................(((.(((((..............))))).))).((((((....))))))...))))))))))........... (-17.41 = -17.94 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:57 2006