Locus 1038

Sequence ID 2L_DroMel_CAF1
Location 2,921,803 – 2,921,921
Length 118
Max. P 0.849598
window1667 window1668

overview

Window 7

Location 2,921,803 – 2,921,921
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.73
Mean single sequence MFE -23.58
Consensus MFE -19.51
Energy contribution -19.03
Covariance contribution -0.48
Combinations/Pair 1.08
Mean z-score -1.61
Structure conservation index 0.83
SVM decision value 0.78
SVM RNA-class probability 0.849598
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2921803 118 + 22407834
UUUGUUUUUACGUUGUUUGCUUGGUUUUAAUGACCUUUGCAUUUCUGGUGUUUUUUUU--AUAGGUGAUUGUUGUUUGAGCUGUGCCUUAUUGACUUUCGAACAACAGAUAAUAUUUUGG
...........(((((((((..((((.....))))...))).................--.........(((((((((((..((.........)).)))))))))))))))))....... ( -19.70)
>DroSec_CAF1 40079 120 + 1
UUCAUUUUCACGUUGUUUGCUUGGUUUUAAUGACCUUUGCAUUUCUGGUGAUUUUUUUUGUUAGGCGAUUGUUGUUUGAGUUGUGCCUUAUUGACUUUCGAACAACAGAUAAUAUUUUGG
..........(((....(((..((((.....))))...)))...((((..(......)..))))))).(((((((((((((((........))))..)))))))))))............ ( -24.10)
>DroSim_CAF1 40927 118 + 1
UUCAUUUUCACGUUGUUUGCUUGGUUUUAAUGACCUUUGCAUUUCUGGUGUUUUUUUU--UUAGGUGAUUGUUGUUUGAGUUGUGCCUUAUUGACUUUCGAACAACAGAUAAUAUUUUGG
.......((((......(((..((((.....))))...)))...((((..........--))))))))(((((((((((((((........))))..)))))))))))............ ( -22.70)
>DroEre_CAF1 40943 115 + 1
UUCAUUUUCAUGUUGUUUGCUUGGUUUUUACGACCUUUGCAUUUCUGCUGUUUAUUU---UUAGGCGAUUGUUGUUCGAGUU--GCCGUAUUGACUUUUGAACAACAGAUAAUAUUUUGG
...(((.((.(((((((((...((((..(((.......(((....))).........---...(((((((........))))--))))))..))))..))))))))))).)))....... ( -25.60)
>DroYak_CAF1 41021 115 + 1
UUCAUUUUCAUGUUGUUUGCUUGGUUUUAAUGACCUUUGCAUUUCUGGUGUUUUUUG---UUAGGCGAUUGUUGUUCGAGUU--GCCUUAUUGACUUUUGAACAACAGAUAAUAUUUUGG
.........((((((..(((..((((.....))))...)))..((((.(((((...(---((((((((((........))))--))))....)))....))))).))))))))))..... ( -25.80)
>consensus
UUCAUUUUCACGUUGUUUGCUUGGUUUUAAUGACCUUUGCAUUUCUGGUGUUUUUUUU__UUAGGCGAUUGUUGUUUGAGUUGUGCCUUAUUGACUUUCGAACAACAGAUAAUAUUUUGG
...........(((((((((..((((.....))))...)))............................(((((((((((................)))))))))))))))))....... (-19.51 = -19.03 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,921,803 – 2,921,921
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.73
Mean single sequence MFE -15.37
Consensus MFE -11.28
Energy contribution -11.28
Covariance contribution 0.00
Combinations/Pair 1.09
Mean z-score -2.32
Structure conservation index 0.73
SVM decision value 0.63
SVM RNA-class probability 0.806276
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2921803 118 - 22407834
CCAAAAUAUUAUCUGUUGUUCGAAAGUCAAUAAGGCACAGCUCAAACAACAAUCACCUAU--AAAAAAAACACCAGAAAUGCAAAGGUCAUUAAAACCAAGCAAACAACGUAAAAACAAA
..............((((((.....(((.....)))...(((..................--...........((....))....(((.......))).))).))))))........... ( -11.80)
>DroSec_CAF1 40079 120 - 1
CCAAAAUAUUAUCUGUUGUUCGAAAGUCAAUAAGGCACAACUCAAACAACAAUCGCCUAACAAAAAAAAUCACCAGAAAUGCAAAGGUCAUUAAAACCAAGCAAACAACGUGAAAAUGAA
......((((.(((((((((............((((..................)))).....................(((...(((.......)))..)))))))))).)).)))).. ( -14.87)
>DroSim_CAF1 40927 118 - 1
CCAAAAUAUUAUCUGUUGUUCGAAAGUCAAUAAGGCACAACUCAAACAACAAUCACCUAA--AAAAAAAACACCAGAAAUGCAAAGGUCAUUAAAACCAAGCAAACAACGUGAAAAUGAA
.............(((((((.((..(((.....))).....)).))))))).((((....--...........((....))....(((.......)))...........))))....... ( -13.40)
>DroEre_CAF1 40943 115 - 1
CCAAAAUAUUAUCUGUUGUUCAAAAGUCAAUACGGC--AACUCGAACAACAAUCGCCUAA---AAAUAAACAGCAGAAAUGCAAAGGUCGUAAAAACCAAGCAAACAACAUGAAAAUGAA
.............((((((((....(((.....)))--.....))))))))...((....---.........(((....)))...(((.......)))..))......(((....))).. ( -20.70)
>DroYak_CAF1 41021 115 - 1
CCAAAAUAUUAUCUGUUGUUCAAAAGUCAAUAAGGC--AACUCGAACAACAAUCGCCUAA---CAAAAAACACCAGAAAUGCAAAGGUCAUUAAAACCAAGCAAACAACAUGAAAAUGAA
.............((((((((....(((.....)))--.....))))))))...((....---..........((....))....(((.......)))..))......(((....))).. ( -16.10)
>consensus
CCAAAAUAUUAUCUGUUGUUCGAAAGUCAAUAAGGCACAACUCAAACAACAAUCGCCUAA__AAAAAAAACACCAGAAAUGCAAAGGUCAUUAAAACCAAGCAAACAACGUGAAAAUGAA
......((((.(((((((((.....(((.....)))...........................................(((...(((.......)))..)))))))))).)).)))).. (-11.28 = -11.28 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:43 2006