Locus 7089

Sequence ID X_DroMel_CAF1
Location 17,775,801 – 17,775,975
Length 174
Max. P 0.980420
window11575 window11576

overview

Window 5

Location 17,775,801 – 17,775,902
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.00
Mean single sequence MFE -24.24
Consensus MFE -3.40
Energy contribution -3.44
Covariance contribution 0.04
Combinations/Pair 1.50
Mean z-score -2.27
Structure conservation index 0.14
SVM decision value 1.86
SVM RNA-class probability 0.980420
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17775801 101 + 22224390
AG-AUUACAUUGUGGAUGUUUAUUGA-------GGGGGGAGUGGAAAAAAUUCUCAUUUUGUAAUGCUUCCA----------GCUCAAUCGAAAGGUUAACAACUUACAACUU-UAACAU
..-......((((((.((((....((-------(..(((((((...(((((....)))))....))))))).----------.)))((((....)))))))).).)))))...-...... ( -21.00)
>DroSec_CAF1 34558 100 + 1
AG-AUAAAAUUCUGGAUGUUUAUUGA-------UGAGGGAGUGGAAA-CGUCCUCAUUUUAUAAUGCAUCCA----------GCUCAAUCUAAAGGUUAACAACUUACAACUU-UAACAU
((-((......((((((((((((.((-------(((((..((....)-)..)))))))..)))).)))))))----------)....)))).((((((..........)))))-)..... ( -28.70)
>DroSim_CAF1 35924 100 + 1
AG-AUAAAAUUCUGGAUGUUUAUUGA-------UGAGGGAGUGGAAA-CAUCCUCAUUUUAUAAUGCAUCCA----------GCUCAAUCUAAAGGUUAACAACUUACAACUU-UAACAU
((-((......((((((((((((.((-------(((((..(((....-))))))))))..)))).)))))))----------)....)))).((((((..........)))))-)..... ( -27.90)
>DroEre_CAF1 32786 99 + 1
AU-AUCACAUUCUGGAUGCUUAUUGAGUCAACAGGGGGGAUUGGAAAACAUCCUCGUCUUAUAAUGUUCCCA-------------CAAUCCCUAGGAUAAAAACUUAAAAC-------AU
.(-(((....((((...((((...))))...))))(((((((((..(((((............)))))..).-------------))))))))..))))............-------.. ( -20.50)
>DroYak_CAF1 33372 113 + 1
AUGAUCACAUUCUGGCUGCUCAGUGA-------GGUGCGAUUGGAAAAAAUCCGCAAUUCAUAAUGUUCCAAUAUGUAACAAGGUCAAUCUGAAGGCUAACUACUUAAGACUUUUAUCAU
.(((((((((..(((..((...((((-------(.(((((((......))).)))).)))))...)).)))..)))).....))))).(((.(((........))).))).......... ( -23.10)
>consensus
AG_AUAACAUUCUGGAUGUUUAUUGA_______GGAGGGAGUGGAAAACAUCCUCAUUUUAUAAUGCUUCCA__________GCUCAAUCUAAAGGUUAACAACUUACAACUU_UAACAU
............((((.((....(((........(((((.((.....)).)))))...)))....)).))))................................................ ( -3.40 =  -3.44 +   0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,775,865 – 17,775,975
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.56
Mean single sequence MFE -23.00
Consensus MFE -7.14
Energy contribution -9.46
Covariance contribution 2.32
Combinations/Pair 1.21
Mean z-score -1.72
Structure conservation index 0.31
SVM decision value 0.16
SVM RNA-class probability 0.612590
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17775865 110 + 22224390
--GCUCAAUCGAAAGGUUAACAACUUACAACUU-UAACAUUCAACGCUUGUA-GUUAUUUAAACAGGUGCUAUGGACAUG--AUAAGGUCAUAAGAUCUUUGGAUAUAGCA----UAAUA
--(((..(((.((((((......((((..((((-((.(((((..(((((((.-.........))))))).....)).)))--.))))))..)))))))))).)))..))).----..... ( -23.70)
>DroSec_CAF1 34621 114 + 1
--GCUCAAUCUAAAGGUUAACAACUUACAACUU-UAACAUUCAACGCUUGUA-GUCAUUAUAACAGGUGCUAUGGACAGG--AUAAGGUCAUAAGAUCUUUGGAUAUAGCAAAUUUAAUA
--(((..((((((((((......((((..((((-((.(.((((.(((((((.-((....)).)))))))...))))...)--.))))))..))))))))))))))..))).......... ( -25.00)
>DroSim_CAF1 35987 114 + 1
--GCUCAAUCUAAAGGUUAACAACUUACAACUU-UAACAUUCAACGCUUGUA-GUUAUUAUAACAGGUGCUAUGGACAGG--AUAAGGUCAUAAGAUCUUUGGAUAUAGCAAAUUUAAUA
--(((..((((((((((......((((..((((-((.(.((((.(((((((.-((....)).)))))))...))))...)--.))))))..))))))))))))))..))).......... ( -25.80)
>DroEre_CAF1 32857 91 + 1
-----CAAUCCCUAGGAUAAAAACUUAAAAC-------AUUCGACGUUUAUA-GUUAUAAUAACCGGUGCUAUGGACAGG--AUUACGACAUA-UACCCUUGGAAUA-------------
-----...(((..(((...............-------.......(((((((-((.............))))))))).(.--....)......-...))).)))...------------- ( -13.12)
>DroYak_CAF1 33445 103 + 1
AAGGUCAAUCUGAAGGCUAACUACUUAAGACUUUUAUCAUACAACGUUUGUAUGGUAUAAUA---GGUGCUGUGGACAGGUCAUUAGGUCAUA-GACCUUUGUAUAA-------------
((((((.((((((.((((..((((...((((((.(((((((((.....)))))))))....)---))).))))))...)))).))))))....-)))))).......------------- ( -27.40)
>consensus
__GCUCAAUCUAAAGGUUAACAACUUACAACUU_UAACAUUCAACGCUUGUA_GUUAUUAUAACAGGUGCUAUGGACAGG__AUAAGGUCAUAAGAUCUUUGGAUAUAGCA____UAAUA
.......(((((((((((...................(((....(((((((...........)))))))..)))(((..........)))....)))))))))))............... ( -7.14 =  -9.46 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:51 2006