Locus 4199

Sequence ID 2R_DroMel_CAF1
Location 13,808,255 – 13,808,361
Length 106
Max. P 0.993708
window6752 window6753

overview

Window 2

Location 13,808,255 – 13,808,361
Length 106
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 71.24
Mean single sequence MFE -29.07
Consensus MFE -19.13
Energy contribution -18.70
Covariance contribution -0.43
Combinations/Pair 1.22
Mean z-score -1.82
Structure conservation index 0.66
SVM decision value 2.42
SVM RNA-class probability 0.993708
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13808255 106 + 20766785
UCCCUUUCUGGAUCUCGCCAUCUAAUGAGUUGCACACACAAGUUG-UUGGGAUGCAGGGAGCCAUCGAUUCGGUUGUUUAUACUUCCCCGAUUUUCGUCAGGGGAAU
((((((..(((.((((((..(((((..(.(((......))).)..-)))))..)).)))).))).(((.((((..((....))....))))...)))..)))))).. ( -30.20)
>DroEre_CAF1 109291 92 + 1
UCCCUUUGUGGAUCUCG-AACUUAAUGAGUUAC--ACACAAGUAGAUUGGGAAGUAGGGAGCU------------GUUUAUACUUCCCUGAUUCCCACCAGGGAAUU
(((((.((((...((((-.......))))...)--))).........((((((.(((((((..------------((....))))))))).))))))..)))))... ( -30.20)
>DroYak_CAF1 113535 82 + 1
UCCCUUUGUGGAUCUCG-AACCUAAUGAGUUAC--ACACAAGUAGUUUGGGAAGCAGGGAGA----------------------GCCCCGAUUCCCGCCAGGGGAAU
((((((((((...((((-.......))))...)--)))..........(((((...(((...----------------------..)))..)))))...)))))).. ( -26.80)
>consensus
UCCCUUUGUGGAUCUCG_AACCUAAUGAGUUAC__ACACAAGUAG_UUGGGAAGCAGGGAGC_____________GUUUAUACUUCCCCGAUUCCCGCCAGGGGAAU
((((((((((...((((........)))).......)))))......((((((...(((...........................)))..))))))..)))))... (-19.13 = -18.70 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 13,808,255 – 13,808,361
Length 106
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 71.24
Mean single sequence MFE -26.31
Consensus MFE -16.91
Energy contribution -18.36
Covariance contribution 1.45
Combinations/Pair 1.06
Mean z-score -1.68
Structure conservation index 0.64
SVM decision value 1.70
SVM RNA-class probability 0.972739
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13808255 106 - 20766785
AUUCCCCUGACGAAAAUCGGGGAAGUAUAAACAACCGAAUCGAUGGCUCCCUGCAUCCCAA-CAACUUGUGUGUGCAACUCAUUAGAUGGCGAGAUCCAGAAAGGGA
....((((..(((...((((..............)))).))).((((((((((((..((((-....))).)..))))..((....)).)).)))..)))...)))). ( -23.14)
>DroEre_CAF1 109291 92 - 1
AAUUCCCUGGUGGGAAUCAGGGAAGUAUAAAC------------AGCUCCCUACUUCCCAAUCUACUUGUGU--GUAACUCAUUAAGUU-CGAGAUCCACAAAGGGA
...(((((.(((((..((.((((((((.....------------.......)))))))).....(((((.((--(.....)))))))).-.))..)))))..))))) ( -28.80)
>DroYak_CAF1 113535 82 - 1
AUUCCCCUGGCGGGAAUCGGGGC----------------------UCUCCCUGCUUCCCAAACUACUUGUGU--GUAACUCAUUAGGUU-CGAGAUCCACAAAGGGA
....((((...(((((.(((((.----------------------...))))).))))).......(((((.--(...(((........-.)))..)))))))))). ( -27.00)
>consensus
AUUCCCCUGGCGGGAAUCGGGGAAGUAUAAAC_____________GCUCCCUGCUUCCCAA_CUACUUGUGU__GUAACUCAUUAGGUU_CGAGAUCCACAAAGGGA
....((((...(((((.((((((........................)))))).)))))...................(((..........)))........)))). (-16.91 = -18.36 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:10 2006