Locus 4766

Sequence ID 3R_DroMel_CAF1
Location 12,496,523 – 12,496,613
Length 90
Max. P 0.997932
window7817 window7818

overview

Window 7

Location 12,496,523 – 12,496,613
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 96.38
Mean single sequence MFE -19.25
Consensus MFE -17.99
Energy contribution -18.22
Covariance contribution 0.22
Combinations/Pair 1.12
Mean z-score -2.03
Structure conservation index 0.93
SVM decision value 2.96
SVM RNA-class probability 0.997932
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12496523 90 + 27905053
U-CAAGUUAUGAGAGUGAUGCCAUAGAAGUGACAUCAUGAAUAUGGUAAAUAGACCAUCAAAUUAAAUAUAUACUUUUAUAAUUGGGGGGG
(-(.(((((((((((((.(((((((...(((....)))...)))))))....(.....)............))))))))))))).)).... ( -20.60)
>DroSec_CAF1 18017 90 + 1
U-CAAGUUAUGAGAGUGAUGCCAUAGAAGUGACAUCAUGAAUAUGGUAAAUAGACCAUCAAAUUAAAUAUAUACUUUUAUAAUUGGGGGGG
(-(.(((((((((((((.(((((((...(((....)))...)))))))....(.....)............))))))))))))).)).... ( -20.60)
>DroSim_CAF1 17330 90 + 1
U-CAAGUUAUGAGAGUGAUGCCAUAGAAGUGACAUCAUGAAUAUGGUAAAUAGACCAUCAAAUUAAAUAUAUACUUUUAUAAUUGGGGGGG
(-(.(((((((((((((.(((((((...(((....)))...)))))))....(.....)............))))))))))))).)).... ( -20.60)
>DroEre_CAF1 18349 90 + 1
U-CAAGUUAUGAGAGUGAUGCCAUAGAAGUGACAUCAUGAAUAUGGUAAAUAGACCAUCAAAUUAAAUAUAUACAUUUAUAAUUGGGGGGG
.-...(((((....)))))((((((...(((....)))...)))))).......((..(((..(((((......)))))...)))..)).. ( -17.60)
>DroYak_CAF1 18282 90 + 1
U-CAAGUUAUGGGAGUGAUGCCAUAGAAGUGACAUCAUGAAUAUGGUAAAUAGACCAUCAAAUUAAAUAUAUACAUUUAUAAUUGGGGGGG
.-................(((((((...(((....)))...)))))))......((..(((..(((((......)))))...)))..)).. ( -15.50)
>DroAna_CAF1 17136 91 + 1
UGCAACUUAUGAGUGUGAUGGCAUAGAAGUGACAUCAUGAAUAUGGUAACUAGACCAUCAAAUUAAAUAUAUACACUUAUAAUUGAGGGGG
..(((.((((((((((((((.(((....))).))))......(((((......)))))..............)))))))))))))...... ( -20.60)
>consensus
U_CAAGUUAUGAGAGUGAUGCCAUAGAAGUGACAUCAUGAAUAUGGUAAAUAGACCAUCAAAUUAAAUAUAUACAUUUAUAAUUGGGGGGG
....(((((((((((((.(((((((...(((....)))...)))))))....(.....)............)))))))))))))....... (-17.99 = -18.22 +   0.22)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,496,523 – 12,496,613
Length 90
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 96.38
Mean single sequence MFE -14.35
Consensus MFE -11.87
Energy contribution -12.03
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.76
Structure conservation index 0.83
SVM decision value 1.34
SVM RNA-class probability 0.944526
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12496523 90 - 27905053
CCCCCCCAAUUAUAAAAGUAUAUAUUUAAUUUGAUGGUCUAUUUACCAUAUUCAUGAUGUCACUUCUAUGGCAUCACUCUCAUAACUUG-A
...............((((..............(((((......))))).....((((((((......))))))))........)))).-. ( -14.30)
>DroSec_CAF1 18017 90 - 1
CCCCCCCAAUUAUAAAAGUAUAUAUUUAAUUUGAUGGUCUAUUUACCAUAUUCAUGAUGUCACUUCUAUGGCAUCACUCUCAUAACUUG-A
...............((((..............(((((......))))).....((((((((......))))))))........)))).-. ( -14.30)
>DroSim_CAF1 17330 90 - 1
CCCCCCCAAUUAUAAAAGUAUAUAUUUAAUUUGAUGGUCUAUUUACCAUAUUCAUGAUGUCACUUCUAUGGCAUCACUCUCAUAACUUG-A
...............((((..............(((((......))))).....((((((((......))))))))........)))).-. ( -14.30)
>DroEre_CAF1 18349 90 - 1
CCCCCCCAAUUAUAAAUGUAUAUAUUUAAUUUGAUGGUCUAUUUACCAUAUUCAUGAUGUCACUUCUAUGGCAUCACUCUCAUAACUUG-A
......(((...((((((....))))))..)))(((((......))))).....((((((((......)))))))).............-. ( -14.00)
>DroYak_CAF1 18282 90 - 1
CCCCCCCAAUUAUAAAUGUAUAUAUUUAAUUUGAUGGUCUAUUUACCAUAUUCAUGAUGUCACUUCUAUGGCAUCACUCCCAUAACUUG-A
......(((...((((((....))))))..)))(((((......))))).....((((((((......)))))))).............-. ( -14.00)
>DroAna_CAF1 17136 91 - 1
CCCCCUCAAUUAUAAGUGUAUAUAUUUAAUUUGAUGGUCUAGUUACCAUAUUCAUGAUGUCACUUCUAUGCCAUCACACUCAUAAGUUGCA
......(((((((.(((((.((....))....((((((.(((.....(((((...))))).....))).))))))))))).)).))))).. ( -15.20)
>consensus
CCCCCCCAAUUAUAAAAGUAUAUAUUUAAUUUGAUGGUCUAUUUACCAUAUUCAUGAUGUCACUUCUAUGGCAUCACUCUCAUAACUUG_A
.................................(((((......))))).....((((((((......))))))))............... (-11.87 = -12.03 +   0.17)

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 11:38:21 2006