Locus 2126

Sequence ID 3R_DroMel_CAF1
Location 6,080,656 – 6,080,746
Length 90
Max. P 0.872357
window3472 window3473

overview

Window 2

Location 6,080,656 – 6,080,746
Length 90
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 82.57
Mean single sequence MFE -20.13
Consensus MFE -16.95
Energy contribution -16.98
Covariance contribution 0.03
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.84
SVM decision value 0.88
SVM RNA-class probability 0.872357
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6080656 90 + 27905053
UAUUGAAUAAUUAUUC--UAUUUAACUGUAUUUCAAUUUUUAUUACAGAUCUUUGUAAAACCAGAUGCCAAGAUCUGGCCCACUGUGGGCAG
..(((((((.......--)))))))....................((((((((.(((........))).))))))))((((.....)))).. ( -21.30)
>DroSec_CAF1 81039 90 + 1
UAUUUCAUAAUUAUUU--UAUGUACCUAUAUUUAAAUUUUUGUUACAGAUCUUUGUUAAGCCAGAUGCCAAGAUCUGGCCCACUGUGGGCAG
.....(((((.....)--)))).......................((((((((.((..........)).))))))))((((.....)))).. ( -20.10)
>DroSim_CAF1 83458 90 + 1
UAUUUCAUAAUUAUUU--UAUGUAACUAUAUCUAAAUUUUUGUUACAGAUCUUUGUUAAGCCAGAUGCCAAGAUCUGGCCCACUGUGGGCAG
.....(((((.....)--)))).......................((((((((.((..........)).))))))))((((.....)))).. ( -20.10)
>DroEre_CAF1 83490 89 + 1
UUUUCAAUAUUUAU-U--UACACAACUAUAUUCCAAUUUUUGCUGCAGAUCUUUGUUAAGCCAGAUGCCAAGAUCUGGCCCACUGUGGGCCG
..............-.--............................(((((((.((..........)).)))))))(((((.....))))). ( -18.40)
>DroWil_CAF1 87629 88 + 1
UUUUUAAUAUUCAUUGUUCCUGCAACUA--AUUGAAUU--CCUUUCAGAUCUUUGUGAAACCAGAUGCCAAAAUUUGGCCCACAGUGGGCAG
...................((((.....--.(((((..--...))))).((.(((((...((((((......))))))..))))).)))))) ( -17.20)
>DroYak_CAF1 84653 90 + 1
UAUUUAAUAGUUAUUU--UACAUAACUAUAUUCCAAUGUUUGUUACAGAUCUUCGUUAAACCAGAUGCCAAGAUCUGGCCCACUGUGGGCAG
......((((((((..--...))))))))................((((((((((((......))))..))))))))((((.....)))).. ( -23.70)
>consensus
UAUUUAAUAAUUAUUU__UAUGUAACUAUAUUUCAAUUUUUGUUACAGAUCUUUGUUAAACCAGAUGCCAAGAUCUGGCCCACUGUGGGCAG
.............................................((((((((.((..........)).))))))))((((.....)))).. (-16.95 = -16.98 +   0.03)

alignment

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secondary structure

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dotplot

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Window 3

Location 6,080,656 – 6,080,746
Length 90
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 82.57
Mean single sequence MFE -19.39
Consensus MFE -15.14
Energy contribution -14.92
Covariance contribution -0.22
Combinations/Pair 1.13
Mean z-score -1.87
Structure conservation index 0.78
SVM decision value 0.52
SVM RNA-class probability 0.766828
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6080656 90 - 27905053
CUGCCCACAGUGGGCCAGAUCUUGGCAUCUGGUUUUACAAAGAUCUGUAAUAAAAAUUGAAAUACAGUUAAAUA--GAAUAAUUAUUCAAUA
..((((.....))))((((((((................)))))))).......(((((.....))))).....--((((....)))).... ( -17.59)
>DroSec_CAF1 81039 90 - 1
CUGCCCACAGUGGGCCAGAUCUUGGCAUCUGGCUUAACAAAGAUCUGUAACAAAAAUUUAAAUAUAGGUACAUA--AAAUAAUUAUGAAAUA
..((((.....))))(((((((((((.....))).....)))))))).......................((((--(.....)))))..... ( -19.00)
>DroSim_CAF1 83458 90 - 1
CUGCCCACAGUGGGCCAGAUCUUGGCAUCUGGCUUAACAAAGAUCUGUAACAAAAAUUUAGAUAUAGUUACAUA--AAAUAAUUAUGAAAUA
..((((.....))))(((((((((((.....))).....))))))))...............((((((((....--...))))))))..... ( -19.70)
>DroEre_CAF1 83490 89 - 1
CGGCCCACAGUGGGCCAGAUCUUGGCAUCUGGCUUAACAAAGAUCUGCAGCAAAAAUUGGAAUAUAGUUGUGUA--A-AUAAAUAUUGAAAA
.(((((.....)))))((((((((((.....))).....)))))))(((((...............)))))...--.-.............. ( -21.96)
>DroWil_CAF1 87629 88 - 1
CUGCCCACUGUGGGCCAAAUUUUGGCAUCUGGUUUCACAAAGAUCUGAAAGG--AAUUCAAU--UAGUUGCAGGAACAAUGAAUAUUAAAAA
..((((.....))))....(((..(((.((((((((.....))(((....))--)....)))--))).)))..)))................ ( -16.10)
>DroYak_CAF1 84653 90 - 1
CUGCCCACAGUGGGCCAGAUCUUGGCAUCUGGUUUAACGAAGAUCUGUAACAAACAUUGGAAUAUAGUUAUGUA--AAAUAACUAUUAAAUA
..((((.....))))((((((((.(............).))))))))................((((((((...--..))))))))...... ( -22.00)
>consensus
CUGCCCACAGUGGGCCAGAUCUUGGCAUCUGGCUUAACAAAGAUCUGUAACAAAAAUUGAAAUAUAGUUACAUA__AAAUAAUUAUUAAAUA
..((((.....))))(((((((((((.....))).....))))))))............................................. (-15.14 = -14.92 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:04 2006