Locus 5186

Sequence ID 3L_DroMel_CAF1
Location 14,272,366 – 14,272,496
Length 130
Max. P 0.700289
window8211 window8212

overview

Window 1

Location 14,272,366 – 14,272,457
Length 91
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 93.98
Mean single sequence MFE -15.38
Consensus MFE -12.47
Energy contribution -12.27
Covariance contribution -0.20
Combinations/Pair 1.13
Mean z-score -1.55
Structure conservation index 0.81
SVM decision value 0.35
SVM RNA-class probability 0.700289
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14272366 91 - 23771897
AUCAGAAAAUUCCAUAAAAUAAACUGAUGUAAUGGAAUGUUCCCAUUCCCAUCAU---CAUCAUCGGGAAAAUGUUGCACUUGACUAAAUAACA
.((((((.(((((((...((......))...))))))).)))...(((((.....---.......)))))...........))).......... ( -13.50)
>DroSec_CAF1 102321 94 - 1
AUCAGAAAAUUCCAUAAAAUAAACUGAUGUAAUGGAAUGGGAACAUUCCCAUCAUCAUCAUCAUCGGAAAAAUGUUGCACUUGACUAAAUAACA
.......................((((((..((((.((((((....))))))..))))...))))))........................... ( -16.40)
>DroSim_CAF1 102412 94 - 1
AUCAGAAAAUUCCAUAAAAUAAACUGAUGUAAUGGAAUGGGAACAUUCCCAUCAUCAUCAUCAUCGGAAAAAUGUUGCACUUGACUAAAUAACA
.......................((((((..((((.((((((....))))))..))))...))))))........................... ( -16.40)
>DroEre_CAF1 102100 91 - 1
AUCAGAGAAUUCCAUAAAAUAAACUGAUGUAAUGGAAUGGGAAUAUUCCCAUCAU---CAUCAUCGGGAAAAUGUUGCACUUGACUAAAUAACA
.......................((((((.....((.(((((....)))))))..---...))))))........................... ( -15.70)
>DroYak_CAF1 105870 91 - 1
AUCAGAGAAUUCCAUAAAAUAAACUGAUGUAAUGGAAUGGGCAUAUUCCCAUCAU---CAUCAUCGGCAAAAUGUUGCACUUGACUAAAUAACA
........................(((((....((((((....))))))...)))---))(((...((((....))))...))).......... ( -14.90)
>consensus
AUCAGAAAAUUCCAUAAAAUAAACUGAUGUAAUGGAAUGGGAACAUUCCCAUCAU___CAUCAUCGGAAAAAUGUUGCACUUGACUAAAUAACA
.........((((...........(((((....((((((....)))))))))))...........))))......................... (-12.47 = -12.27 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,272,387 – 14,272,496
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.02
Mean single sequence MFE -25.10
Consensus MFE -11.73
Energy contribution -12.85
Covariance contribution 1.12
Combinations/Pair 1.24
Mean z-score -2.46
Structure conservation index 0.47
SVM decision value 0.30
SVM RNA-class probability 0.680520
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14272387 109 + 23771897
AUUUUCCCGAUGAUG---AUGAUGGGAAUGGGAACAU------UCCAU-UACAUCAGUUUAUUUUAUGGAAUUUUCUGAUUGAUUUCAAUGCACGAAGAUCAUUUAAUUGGAAUUGAUU-
...((((.(((((((---(((...((((((....)))------)))..-..)))))..)))))....))))......(((..((((((((................))))))))..)))- ( -26.29)
>DroPse_CAF1 99352 108 + 1
AUUUCC--ACUGA---------UUUGAUUAUUUCUUUUUUUUUUCUAUUUAUUUCUAUUUCUUUGUU-GGAUUUACUGAUUGAUUGCAAUUCAUCGAAAUCAGUGCAUUUGAAGCUAUUU
.....(--(((((---------((((((.....................((..((((.........)-)))..))..(((((....))))).))).)))))))))............... ( -13.60)
>DroSec_CAF1 102342 112 + 1
AUUUUUCCGAUGAUGAUGAUGAUGGGAAUGUUCCCAU------UCCAU-UACAUCAGUUUAUUUUAUGGAAUUUUCUGAUUGAUUUCAAUGUAUGAAGAUCAUUUAAUUGGAAUUGAUU-
....(((((.(((((.(((((((((((....))))))------..)))-)))))))..........)))))......(((..((((((((..(((.....)))...))))))))..)))- ( -29.30)
>DroSim_CAF1 102433 112 + 1
AUUUUUCCGAUGAUGAUGAUGAUGGGAAUGUUCCCAU------UCCAU-UACAUCAGUUUAUUUUAUGGAAUUUUCUGAUUGAUUUCAAUGCAUGAAGAUCAUUUAAUUGGAAUUGAUU-
....(((((.(((((.(((((((((((....))))))------..)))-)))))))..........)))))......(((..((((((((..(((.....)))...))))))))..)))- ( -28.60)
>DroEre_CAF1 102121 109 + 1
AUUUUCCCGAUGAUG---AUGAUGGGAAUAUUCCCAU------UCCAU-UACAUCAGUUUAUUUUAUGGAAUUCUCUGAUUGAAUCCAAUGCAUGAAGAUCAUUUAAUUGGAAUUGAUU-
........((((.((---(((((((((....))))))------..)))-))))))......................(((..(.((((((..(((.....)))...)))))).)..)))- ( -25.30)
>DroYak_CAF1 105891 109 + 1
AUUUUGCCGAUGAUG---AUGAUGGGAAUAUGCCCAU------UCCAU-UACAUCAGUUUAUUUUAUGGAAUUCUCUGAUUGAUUCCGAUGCAUGAAGAUCAUUUAAUUGGAAUUGAUU-
........((((.((---((((((((......)))))------..)))-))))))......................(((..((((((((..(((.....)))...))))))))..)))- ( -27.50)
>consensus
AUUUUCCCGAUGAUG___AUGAUGGGAAUAUUCCCAU______UCCAU_UACAUCAGUUUAUUUUAUGGAAUUUUCUGAUUGAUUUCAAUGCAUGAAGAUCAUUUAAUUGGAAUUGAUU_
.....................(((((......)))))...............((((((((...(((..((.(((((((((((....)))).)).)))))))...)))...)))))))).. (-11.73 = -12.85 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:04 2006