Locus 3164

Sequence ID X_DroMel_CAF1
Location 8,404,190 – 8,404,334
Length 144
Max. P 0.942749
window5195 window5196

overview

Window 5

Location 8,404,190 – 8,404,295
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 73.31
Mean single sequence MFE -22.38
Consensus MFE -9.96
Energy contribution -9.65
Covariance contribution -0.31
Combinations/Pair 1.09
Mean z-score -2.20
Structure conservation index 0.45
SVM decision value 0.20
SVM RNA-class probability 0.631683
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8404190 105 - 22224390
AACAAAAGACGAAAAG-----------AAAACAUCGAUUUUUCACUAUACUAUCGAUGUUUCACGCCUUCAAAGUGA----AAUGUCCAAAAAAUAUGCCUCGUUUUCUUUAUAUGAUUA
............((((-----------(((((...((....))...........((((((((((.........))))----))))))...............)))))))))......... ( -19.30)
>DroSec_CAF1 3400 88 - 1
AACAAAAGACGAAAAG-----------AAAACAUCGAUUUCUCACUAUGCUAUCGAUGUUUCAGGUCUUCAAGGU---------------------UGCCUAGUUGUCUUUAUAUGAUUA
....((((((((...(-----------(((.(((((((..(.......)..)))))))))))((((..(....).---------------------.))))..))))))))......... ( -21.70)
>DroEre_CAF1 6825 116 - 1
AACAAAAGACGAAAAGUGAGCAAACCGAAAACAUCGAUUUCUAGCUAUGCAAUCGAUGUUUUGCGCCUUCAAAGUUA----UAUGUCCAACAUAUAUGCCUUGUUUUCUUUAUAAGAUCA
............((((.((((((..((((((((((((((.(.......).)))))))))))).))..........((----((((.....))))))....)))))).))))......... ( -24.00)
>DroYak_CAF1 6435 120 - 1
AACAAAAGACGAAAAGUGAGGAAAACAAAAACAUCGAAUCCUAGCUGUGCUAUCGAUGUUUCGCGUCUUUAAAGUUAUGUAUAUGUCCAACAAAUAUACCUCGUUUUCUUUAAAAGAUCA
..........((....((((((((((..(((((((((....((((...))))))))))))).................((((((.........))))))...)))))))))).....)). ( -24.50)
>consensus
AACAAAAGACGAAAAG___________AAAACAUCGAUUUCUAACUAUGCUAUCGAUGUUUCACGCCUUCAAAGUUA____UAUGUCCAACAAAUAUGCCUCGUUUUCUUUAUAAGAUCA
....(((((.((..((............((((((((((..(.......)..)))))))))).....((....)).........................))..)).)))))......... ( -9.96 =  -9.65 +  -0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 8,404,229 – 8,404,334
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.47
Mean single sequence MFE -25.33
Consensus MFE -14.27
Energy contribution -14.02
Covariance contribution -0.25
Combinations/Pair 1.16
Mean z-score -2.22
Structure conservation index 0.56
SVM decision value 1.33
SVM RNA-class probability 0.942749
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8404229 105 + 22224390
---UCACUUUGAAGGCGUGAAACAUCGAUAGUAUAGUGAAAAAUCGAUGUUUU-----------CUUUUCGUCUUUUGUUUUGCUCUCGCUCUUCU-CCAUGAAGUGAUAACUUCUCAAC
---((((((((((((((.(((((((((((.............)))))))))))-----------.....)))))))......((....))......-....)))))))............ ( -24.32)
>DroSec_CAF1 3424 100 + 1
-----ACCUUGAAGACCUGAAACAUCGAUAGCAUAGUGAGAAAUCGAUGUUUU-----------CUUUUCGUCUUUUGUUGUGCUCUCGGUCUUCU-UCCUAAAGUGAAAAC---UCAAC
-----.....(((((((.((....))((.(((((((..(((...(((......-----------....)))..)))..))))))).))))))))).-......(((....))---).... ( -26.50)
>DroEre_CAF1 6864 114 + 1
---UAACUUUGAAGGCGCAAAACAUCGAUUGCAUAGCUAGAAAUCGAUGUUUUCGGUUUGCUCACUUUUCGUCUUUUGUUUUGCUCUCGCUCUUC---CCCUGCGUGAAAACUUCUUAUU
---.......((((..((((((((.(((......(((...(((((((.....))))))))))......))).....))))))))((.(((.....---....))).))...))))..... ( -27.20)
>DroYak_CAF1 6475 120 + 1
ACAUAACUUUAAAGACGCGAAACAUCGAUAGCACAGCUAGGAUUCGAUGUUUUUGUUUUCCUCACUUUUCGUCUUUUGUUUUGCUCUCGCUCUUCUGCCCUUUCGUGAAAACUUCUCACU
.((.(((...(((((((.((((((((((((((...))))....))))))))))((.......)).....))))))).))).)).....((......))......((((.......)))). ( -23.30)
>consensus
___UAACUUUGAAGACGCGAAACAUCGAUAGCAUAGCGAGAAAUCGAUGUUUU___________CUUUUCGUCUUUUGUUUUGCUCUCGCUCUUCU_CCCUUAAGUGAAAACUUCUCAAC
.....((...(((((((.(((((((((((..(.......)..)))))))))))................))))))).)).......((((..............))))............ (-14.27 = -14.02 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:48 2006