Locus 1929

Sequence ID 2R_DroMel_CAF1
Location 7,277,067 – 7,277,160
Length 93
Max. P 0.925528
window3187 window3188

overview

Window 7

Location 7,277,067 – 7,277,160
Length 93
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 82.67
Mean single sequence MFE -25.82
Consensus MFE -19.27
Energy contribution -19.77
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.38
Structure conservation index 0.75
SVM decision value -0.02
SVM RNA-class probability 0.524352
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7277067 93 + 20766785
AUUUU------------UGGUGG-GGAGGGGGAGCUCCAUCUGUGCGGCGCUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
.....------------.(((((-((........)))))))(((((((....((((.((..(((((((....)))))))....)).))))...)))))))...... ( -27.10)
>DroSec_CAF1 72973 94 + 1
UGAGG------------GGGGGGUGGAGGGGGAGCUCCAUCUGUGCGGCGCUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
.....------------...((((((((......))))))))((((((....((((.((..(((((((....)))))))....)).))))...))))))....... ( -29.00)
>DroSim_CAF1 76452 93 + 1
UGAGG------------GGGAGG-GGAGGGGGAGCUCCAUCUGUGCGGCGCUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
.....------------.(((..-((((......)))).)))((((((....((((.((..(((((((....)))))))....)).))))...))))))....... ( -25.20)
>DroEre_CAF1 73102 105 + 1
UUUUUGUGUUUGGUUUUGUUUGG-GAAGGGGGAGCUCCAUCUGUGCGGCGCUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
.((((((((..(((..((((.((-.(((...((((.((........)).))))........(((((((....))))))).))).))))))..)))))))))))... ( -25.90)
>DroYak_CAF1 74844 104 + 1
UUUUCC-CUUUUUUUGUGUUUGG-GAAGGGGCAGCUCCAUCUGUGCGGCGCUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
...(((-((((((........))-)))))))..........(((((((....((((.((..(((((((....)))))))....)).))))...)))))))...... ( -27.10)
>DroAna_CAF1 69125 92 + 1
UAAUUCCACUUUUUU--------------GUGAGCUCCAUCUGUGCGGCGUUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
......(((......--------------))).........(((((((....((((.((..(((((((....)))))))....)).))))...)))))))...... ( -20.60)
>consensus
UUAUU____________GGGUGG_GGAGGGGGAGCUCCAUCUGUGCGGCGCUUAUUAAUUGUGUGCGAAUGUUUGCACAAUUUGUCAAUAUUAUCGCACAAAACAU
...........................((((...))))...(((((((....((((.((..(((((((....)))))))....)).))))...)))))))...... (-19.27 = -19.77 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,277,067 – 7,277,160
Length 93
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 82.67
Mean single sequence MFE -21.17
Consensus MFE -17.82
Energy contribution -18.32
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -2.38
Structure conservation index 0.84
SVM decision value 1.17
SVM RNA-class probability 0.925528
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7277067 93 - 20766785
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAGCGCCGCACAGAUGGAGCUCCCCCUCC-CCACCA------------AAAAU
....((((((((....((((((.....(((((........)))))...)))))).....)))))))).((((......))))-......------------..... ( -21.30)
>DroSec_CAF1 72973 94 - 1
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAGCGCCGCACAGAUGGAGCUCCCCCUCCACCCCCC------------CCUCA
....((((((((....((((((.....(((((........)))))...)))))).....))))))))(((((......)))))......------------..... ( -22.90)
>DroSim_CAF1 76452 93 - 1
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAGCGCCGCACAGAUGGAGCUCCCCCUCC-CCUCCC------------CCUCA
....((((((((....((((((.....(((((........)))))...)))))).....)))))))).((((......))))-......------------..... ( -21.30)
>DroEre_CAF1 73102 105 - 1
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAGCGCCGCACAGAUGGAGCUCCCCCUUC-CCAAACAAAACCAAACACAAAAA
.(((((((((((....((((((.....(((((........)))))...)))))).....))))))...((((.......)))-).)))))................ ( -19.10)
>DroYak_CAF1 74844 104 - 1
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAGCGCCGCACAGAUGGAGCUGCCCCUUC-CCAAACACAAAAAAAG-GGAAAA
....((((((((....((((((.....(((((........)))))...)))))).....)))))))).((......)).(((-((.............)-)))).. ( -22.62)
>DroAna_CAF1 69125 92 - 1
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAACGCCGCACAGAUGGAGCUCAC--------------AAAAAAGUGGAAUUA
....((((((((....((((((.....(((((........)))))...)))))).....))))))))..((..((((--------------......))))..)). ( -19.80)
>consensus
AUGUUUUGUGCGAUAAUAUUGACAAAUUGUGCAAACAUUCGCACACAAUUAAUAAGCGCCGCACAGAUGGAGCUCCCCCUCC_CCACCC____________AAAAA
....((((((((....((((((.....(((((........)))))...)))))).....)))))))).((((......))))........................ (-17.82 = -18.32 +   0.50)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:34 2006