Locus 2434

Sequence ID 2R_DroMel_CAF1
Location 8,746,178 – 8,746,290
Length 112
Max. P 0.970791
window4028 window4029

overview

Window 8

Location 8,746,178 – 8,746,290
Length 112
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 85.16
Mean single sequence MFE -28.33
Consensus MFE -16.13
Energy contribution -17.70
Covariance contribution 1.57
Combinations/Pair 1.22
Mean z-score -3.42
Structure conservation index 0.57
SVM decision value 0.43
SVM RNA-class probability 0.732621
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8746178 112 + 20766785
AGAUCUGGGCUUUAUAUCUCUGGCUAGAUC-AACUGUAAAUAGCUAAAGCUUGUAAACUACUUAAGCUCCUUCAAAAGUUUUGCUUUAUGCAGUUGUUUUUAUAACACAAAUU
.(((((((.(...........).)))))))-(((((((...(((.(((((((.......................))))))))))...))))))).................. ( -24.80)
>DroSec_CAF1 4300 111 + 1
AGAUCUGGGUUAUAUAUCUCUAGCUACUCCUAACGGUAAAUAGCUAGAGUUUGUGA--UAGUUAUGCUCCUUCAAAAGCUUAGCUAAAUGCAAUUAAUUUUAUAACACAAAUU
.(((.((.((((((...(((((((((..((....))....))))))))).((((..--((((((.(((........))).))))))...)))).......)))))).)).))) ( -29.20)
>DroSim_CAF1 5236 111 + 1
AGAUCUGGGUUACAUAUCUCUAGCUACUCCUAACGGUAAAUAGCUAGAGUUUGUGA--UAGUUAUGCUUCUUCAAAAGCUUAGCUAAAUGCUAUUAUUUUUAUAACACAAAUU
........((((((...(((((((((..((....))....)))))))))..)))))--).(((((((((......)))).((((.....))))........)))))....... ( -31.00)
>consensus
AGAUCUGGGUUAUAUAUCUCUAGCUACUCCUAACGGUAAAUAGCUAGAGUUUGUGA__UAGUUAUGCUCCUUCAAAAGCUUAGCUAAAUGCAAUUAUUUUUAUAACACAAAUU
.................(((((((((..((....))....))))))))).(((((..........(((........))).((((.....))))............)))))... (-16.13 = -17.70 +   1.57)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,746,178 – 8,746,290
Length 112
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 85.16
Mean single sequence MFE -26.70
Consensus MFE -22.35
Energy contribution -23.37
Covariance contribution 1.01
Combinations/Pair 1.19
Mean z-score -2.89
Structure conservation index 0.84
SVM decision value 1.66
SVM RNA-class probability 0.970791
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8746178 112 - 20766785
AAUUUGUGUUAUAAAAACAACUGCAUAAAGCAAAACUUUUGAAGGAGCUUAAGUAGUUUACAAGCUUUAGCUAUUUACAGUU-GAUCUAGCCAGAGAUAUAAAGCCCAGAUCU
.(((((.(((.......((((((.....(((....(....)..(((((((..(((...)))))))))).))).....)))))-)((((......))))....))).))))).. ( -18.30)
>DroSec_CAF1 4300 111 - 1
AAUUUGUGUUAUAAAAUUAAUUGCAUUUAGCUAAGCUUUUGAAGGAGCAUAACUA--UCACAAACUCUAGCUAUUUACCGUUAGGAGUAGCUAGAGAUAUAUAACCCAGAUCU
.(((((.((((((.......(((....(((.((.(((((....))))).)).)))--...))).(((((((((((..((....)))))))))))))...)))))).))))).. ( -30.00)
>DroSim_CAF1 5236 111 - 1
AAUUUGUGUUAUAAAAAUAAUAGCAUUUAGCUAAGCUUUUGAAGAAGCAUAACUA--UCACAAACUCUAGCUAUUUACCGUUAGGAGUAGCUAGAGAUAUGUAACCCAGAUCU
.(((((.((((((.......((((.....)))).(((((....))))).......--.......(((((((((((..((....)))))))))))))...)))))).))))).. ( -31.80)
>consensus
AAUUUGUGUUAUAAAAAUAAUUGCAUUUAGCUAAGCUUUUGAAGGAGCAUAACUA__UCACAAACUCUAGCUAUUUACCGUUAGGAGUAGCUAGAGAUAUAUAACCCAGAUCU
.(((((.((((((.......((((.....)))).(((((....)))))................((((((((((((........))))))))))))...)))))).))))).. (-22.35 = -23.37 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:03 2006