Locus 8216

Sequence ID 3R_DroMel_CAF1
Location 22,052,222 – 22,052,366
Length 144
Max. P 0.961614
window13227 window13228

overview

Window 7

Location 22,052,222 – 22,052,329
Length 107
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 83.93
Mean single sequence MFE -29.05
Consensus MFE -17.19
Energy contribution -18.62
Covariance contribution 1.44
Combinations/Pair 1.11
Mean z-score -3.43
Structure conservation index 0.59
SVM decision value 1.53
SVM RNA-class probability 0.961614
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22052222 107 - 27905053
UUUGUGUUGAGAAUUACCAUCACCAUGGUGGUAAU----------UAUAACAAAUUUGUGAAUACUUUAUCACAAAACUGGGUACAAAAGUGGUUAUGCAUUUUUGAUCUCCCGUAA
....(((((..((((((((((.....)))))))))----------).)))))..(((((((........)))))))...(((..((((((((......))))))))....))).... ( -31.30)
>DroSec_CAF1 44343 107 - 1
UUUGUGUUCAGAAUUACCAUCAGAAUGGUGGUAAU----------UAUAACAAAUUUGUGAAUACUUUAUCACAAAACUGGGUACAAAAGUGGUUAUGCAUUUUUGAUCUCACGUAA
((((((..(((((((((((((.....)))))))))----------)........(((((((........))))))).)))..)))))).(.(((((........))))).)...... ( -32.00)
>DroSim_CAF1 36983 107 - 1
UUUGCGUUGAGAAUUACCAUCAGAAUGGUGGUAAU----------UAUAACAAAUUUGUGAAUACUUUAUCACAAAACAGGGUACAAAAGUGGUUAUGCAUUUUUGAUCUCCCGUAA
.((((((((..((((((((((.....)))))))))----------).))))...(((((((........)))))))...(((..((((((((......))))))))....))))))) ( -32.00)
>DroYak_CAF1 46441 116 - 1
UUUGUCUGGUGUAUUACCAUCAGAAUAGUGGUAAUUAAUGGCAAUUAUAACAAAUUGAUGAAUACUUAAUUACACAAUU-UAUACGAAACUAGGUAUGCAUUUUUGAUCUCCUCUAA
....(((((((......))))))).(((.((..(((((..((.........((((((.(((((.....))).)))))))-)((((........))))))....)))))..)).))). ( -20.90)
>consensus
UUUGUGUUGAGAAUUACCAUCAGAAUGGUGGUAAU__________UAUAACAAAUUUGUGAAUACUUUAUCACAAAACUGGGUACAAAAGUGGUUAUGCAUUUUUGAUCUCCCGUAA
............(((((((((.....)))))))))...................(((((((........)))))))...((((.((((((((......))))))))))))....... (-17.19 = -18.62 +   1.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,052,262 – 22,052,366
Length 104
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 85.71
Mean single sequence MFE -23.85
Consensus MFE -14.84
Energy contribution -15.84
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.62
SVM decision value 0.41
SVM RNA-class probability 0.725905
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22052262 104 - 27905053
---GAAAAUGAUUUCUUUCUUUUCACAAGAUUAAGUGUGCUUUGUGUUGAGAAUUACCAUCACCAUGGUGGUAAU----------UAUAACAAAUUUGUGAAUACUUUAUCACAAAA
---(((((.((......)))))))....(((.((((((((....(((((..((((((((((.....)))))))))----------).))))).....))..)))))).)))...... ( -25.30)
>DroSec_CAF1 44383 107 - 1
ACAGAAAUUGAUUUAUUUCUUUUCACAAGAUUAAGUGUGCUUUGUGUUCAGAAUUACCAUCAGAAUGGUGGUAAU----------UAUAACAAAUUUGUGAAUACUUUAUCACAAAA
..((((((......))))))........(((.((((((((....((((...((((((((((.....)))))))))----------)..)))).....))..)))))).)))...... ( -24.30)
>DroSim_CAF1 37023 107 - 1
ACAGAAAAUGAUUUCUUUCUUUUCACAAGAUUAAGUGUGCUUUGCGUUGAGAAUUACCAUCAGAAUGGUGGUAAU----------UAUAACAAAUUUGUGAAUACUUUAUCACAAAA
...(((((.((......)))))))....(((.((((((((...))((((..((((((((((.....)))))))))----------).))))..........)))))).)))...... ( -23.80)
>DroYak_CAF1 46480 117 - 1
ACAGAAAAUGAUUUCUUUCACUUCUCAAGAUUAAGUGUGCUUUGUCUGGUGUAUUACCAUCAGAAUAGUGGUAAUUAAUGGCAAUUAUAACAAAUUGAUGAAUACUUAAUUACACAA
..((((..(((......))).))))...(((((((((((((...(((((((......)))))))..)))............(((((......)))))....))))))))))...... ( -22.00)
>consensus
ACAGAAAAUGAUUUCUUUCUUUUCACAAGAUUAAGUGUGCUUUGUGUUGAGAAUUACCAUCAGAAUGGUGGUAAU__________UAUAACAAAUUUGUGAAUACUUUAUCACAAAA
...((((........))))..((((((((......(((..............(((((((((.....)))))))))..............)))..))))))))............... (-14.84 = -15.84 +   1.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:37 2006