Locus 8084

Sequence ID 3R_DroMel_CAF1
Location 21,709,103 – 21,709,216
Length 113
Max. P 0.739050
window13014 window13015

overview

Window 4

Location 21,709,103 – 21,709,216
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.94
Mean single sequence MFE -40.08
Consensus MFE -27.74
Energy contribution -27.74
Covariance contribution 0.00
Combinations/Pair 1.22
Mean z-score -2.04
Structure conservation index 0.69
SVM decision value 0.24
SVM RNA-class probability 0.649527
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21709103 113 + 27905053
UUUUCCAUCUCCCCUCUCCAUUUUGUCGCCCUCUUGAAAUUGCAAUGUGUGGGAAACUUAAUUUGUUGCAUCUAGGAG-GU------GAAAGAGGGAGAUAGAAACUGUGGGAGACGAGA
.((((..((((((..((((.((((.(((((.(((((....(((((((...((....)).....)))))))..))))))-))------)).))))))))((((...)))))))))).)))) ( -36.70)
>DroSec_CAF1 36490 119 + 1
UUUUCCACCUCCCCUCGCCAUUUUGUCGCCCCCUCGAAAUUGCAAUGUGUGGGAAACUUAAUUUGUUGCAUACAGGGGGGUGG-GGGCAAAGAGGGUGAUAGAAACUGUGGGAGACGGGA
..((((..(((((..((((.(((((((.(((((((.....(((((((...((....)).....))))))).....))))).))-.)))))))..))))((((...)))))))))..)))) ( -46.30)
>DroSim_CAF1 48248 120 + 1
UUUUCCACCUCCCCUCGCCAUUUUGUCGCCCCCUUGAAAUUGCAAUGUGUGGGAAACUUAAUUUGUUGCAUACAGGGGGGUGGGGGGCAAAGAGGGUGAUAGAAACUGUGGGAGACGGGA
((((((((.((((((((((....(.(((((((((((....(((((((...((....)).....)))))))..))))))))))).))))...))))).))........))))))))..... ( -47.60)
>DroEre_CAF1 33110 112 + 1
UUUUCCACCUCCCUUCGUCAUUUUGUCGCCCUCUCGAAAUUGCAGUGUGUGGGAAACUUAAUUUGUUGCAUCCAGGGG-G-------GAAAGAGGCAGAUAGAAACAGUGGGAGAAUGGA
...((((.(((((....((..((((((.(((((..(....((((..(...((....)).....)..))))..)..)))-)-------).....))))))..))......)))))..)))) ( -34.50)
>DroYak_CAF1 33333 113 + 1
CUUUCCACCUCCCCUCGCCAUUUUGUCGCCCUCUCGAAAUUGCAAUGUGUGGGAAAUUUAAUUUGUUGCAUCCAGGGGGG-------GGAAGAGGGAGAUAGAAACAGUGGGAGACGGAA
..((((..(((((((.(...(((((((.((((((......(((((((.((..........)).)))))))(((.......-------))))))))).))))))).))).)))))..)))) ( -35.30)
>consensus
UUUUCCACCUCCCCUCGCCAUUUUGUCGCCCUCUCGAAAUUGCAAUGUGUGGGAAACUUAAUUUGUUGCAUCCAGGGGGGU______GAAAGAGGGAGAUAGAAACUGUGGGAGACGGGA
((((((((.(((((((...........(((((((.(....(((((((...((....)).....)))))))..).)))))))..........))))).))........))))))))..... (-27.74 = -27.74 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,709,103 – 21,709,216
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.94
Mean single sequence MFE -31.93
Consensus MFE -23.65
Energy contribution -23.77
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -1.87
Structure conservation index 0.74
SVM decision value 0.44
SVM RNA-class probability 0.739050
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21709103 113 - 27905053
UCUCGUCUCCCACAGUUUCUAUCUCCCUCUUUC------AC-CUCCUAGAUGCAACAAAUUAAGUUUCCCACACAUUGCAAUUUCAAGAGGGCGACAAAAUGGAGAGGGGAGAUGGAAAA
...............((((((((((((.(((((------.(-(((..((((((((....................)))).))))...))))....(.....)))))))))))))))))). ( -30.55)
>DroSec_CAF1 36490 119 - 1
UCCCGUCUCCCACAGUUUCUAUCACCCUCUUUGCCC-CCACCCCCCUGUAUGCAACAAAUUAAGUUUCCCACACAUUGCAAUUUCGAGGGGGCGACAAAAUGGCGAGGGGAGGUGGAAAA
...............((((((((.(((((.((((((-((((......)).(((((....................))))).......))))))))(.....)..)))))..)))))))). ( -32.75)
>DroSim_CAF1 48248 120 - 1
UCCCGUCUCCCACAGUUUCUAUCACCCUCUUUGCCCCCCACCCCCCUGUAUGCAACAAAUUAAGUUUCCCACACAUUGCAAUUUCAAGGGGGCGACAAAAUGGCGAGGGGAGGUGGAAAA
.....................((((((((((((((...(.(((((.((..(((((....................)))))....)).))))).).......))))))))).))))).... ( -33.35)
>DroEre_CAF1 33110 112 - 1
UCCAUUCUCCCACUGUUUCUAUCUGCCUCUUUC-------C-CCCCUGGAUGCAACAAAUUAAGUUUCCCACACACUGCAAUUUCGAGAGGGCGACAAAAUGACGAAGGGAGGUGGAAAA
(((((.(((((..((((......((((.(((((-------(-(....)).((((......................)))).....))))))))).......))))..))))))))))... ( -29.07)
>DroYak_CAF1 33333 113 - 1
UUCCGUCUCCCACUGUUUCUAUCUCCCUCUUCC-------CCCCCCUGGAUGCAACAAAUUAAAUUUCCCACACAUUGCAAUUUCGAGAGGGCGACAAAAUGGCGAGGGGAGGUGGAAAG
((((..(((((..((((....((.(((((((.(-------(......)).(((((....................))))).....))))))).))......))))..)))))..)))).. ( -33.95)
>consensus
UCCCGUCUCCCACAGUUUCUAUCUCCCUCUUUC______ACCCCCCUGGAUGCAACAAAUUAAGUUUCCCACACAUUGCAAUUUCGAGAGGGCGACAAAAUGGCGAGGGGAGGUGGAAAA
..(((((((((...(((....((.(((((((...........((...)).(((((....................))))).....))))))).))......)))...))))))))).... (-23.65 = -23.77 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:14 2006