Locus 7783

Sequence ID X_DroMel_CAF1
Location 19,376,094 – 19,376,211
Length 117
Max. P 0.860257
window12771 window12772

overview

Window 1

Location 19,376,094 – 19,376,211
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.17
Mean single sequence MFE -27.40
Consensus MFE -22.74
Energy contribution -21.94
Covariance contribution -0.80
Combinations/Pair 1.26
Mean z-score -1.81
Structure conservation index 0.83
SVM decision value 0.76
SVM RNA-class probability 0.842407
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19376094 117 + 22224390
AUAAGAUUGGAUAAGAUUGUGUAAGAUAGGGUUGUUAUAUAAAUUUCUUCAAACCGAAAGUCUUUGUUAGUUUGAUUAGAAUUCUAUGCGAUGAAAUUUGUAUAGCAUCCUU---UGAGU
...........................((((.(((((((((((((((.((((((((((....))))...)))))).(((....)))......))))))))))))))).))))---..... ( -24.10)
>DroSec_CAF1 9175 112 + 1
AUGAGAUUGGAAAAGAUUGUGU-----AGAGGUGUUACAUAAAUUUCUUCAAGCCGAAGGUCUUUGUUAAUUUGAUUAGAAUUCUGUGCGAAGAAAUUUUUAUAGCAUCUUA---AGAGC
(..(..((....))..)..)..-----.(((((((((...((((((((((..((.(((..(((..(((.....))).))).))).))..))))))))))...))))))))).---..... ( -25.30)
>DroSim_CAF1 5548 112 + 1
AUGAGAUUGGAAAAGAUUGUGU-----AGAGGUGUUACAUAAAUUUCUUCAAACCGAAGGUCUUUGUUAAUUUGAUUAGAAUUCUGUGCGAAGAAAUUUUUAUAGCAUCUUA---AGAGC
(..(..((....))..)..)..-----.(((((((((...((((((((((..((.(((..(((..(((.....))).))).))).))..))))))))))...))))))))).---..... ( -25.00)
>DroEre_CAF1 8782 115 + 1
AUGAGGUUGGAUGAGAUUUUAC-----AGGGCUGUUACAUAAAUCUCUUCAAGCCGAAGGUCUAUGUAAGUUUGGUUGGAAUUCUGUGAGAAGAGAUUUCUAUAGCAUCCUGAAUACAGU
.(((((((......)))))))(-----((((.(((((.(.((((((((((..((.(((..((((............)))).))).))..)))))))))).).))))))))))........ ( -30.70)
>DroYak_CAF1 8874 115 + 1
AUGAGGUUGGAUGAGAUUGUAC-----AGGGGUGUUACAUAAAUUUCUUCAAGCCGAAAGUCUAUGUAAAUUUGGUUGGAAUUCGGUGAGAAGAGAUUUCUAUAGCACUCUGAAUAGAGC
................((((..-----.(((((((((.(.((((((((((..((((((..((((............)))).))))))..)))))))))).).)))))))))..))))... ( -31.90)
>consensus
AUGAGAUUGGAUAAGAUUGUGU_____AGGGGUGUUACAUAAAUUUCUUCAAGCCGAAGGUCUUUGUUAAUUUGAUUAGAAUUCUGUGCGAAGAAAUUUCUAUAGCAUCCUA___AGAGC
............................(((((((((...((((((((((..((.(((..(((..............))).))).))..))))))))))...)))))))))......... (-22.74 = -21.94 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,376,094 – 19,376,211
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.17
Mean single sequence MFE -17.12
Consensus MFE -12.29
Energy contribution -12.01
Covariance contribution -0.28
Combinations/Pair 1.13
Mean z-score -2.01
Structure conservation index 0.72
SVM decision value 0.83
SVM RNA-class probability 0.860257
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19376094 117 - 22224390
ACUCA---AAGGAUGCUAUACAAAUUUCAUCGCAUAGAAUUCUAAUCAAACUAACAAAGACUUUCGGUUUGAAGAAAUUUAUAUAACAACCCUAUCUUACACAAUCUUAUCCAAUCUUAU
.....---..((.((.((((.(((((((......(((....))).(((((((.............))))))).))))))).)))).)).))............................. ( -15.82)
>DroSec_CAF1 9175 112 - 1
GCUCU---UAAGAUGCUAUAAAAAUUUCUUCGCACAGAAUUCUAAUCAAAUUAACAAAGACCUUCGGCUUGAAGAAAUUUAUGUAACACCUCU-----ACACAAUCUUUUCCAAUCUCAU
.....---..(((((.((((.((((((((((((...(((.(((..............)))..))).))..)))))))))).)))).))..)))-----...................... ( -14.54)
>DroSim_CAF1 5548 112 - 1
GCUCU---UAAGAUGCUAUAAAAAUUUCUUCGCACAGAAUUCUAAUCAAAUUAACAAAGACCUUCGGUUUGAAGAAAUUUAUGUAACACCUCU-----ACACAAUCUUUUCCAAUCUCAU
.....---..(((((.((((.(((((((((((.((.(((.(((..............)))..))).)).))))))))))).)))).))..)))-----...................... ( -15.94)
>DroEre_CAF1 8782 115 - 1
ACUGUAUUCAGGAUGCUAUAGAAAUCUCUUCUCACAGAAUUCCAACCAAACUUACAUAGACCUUCGGCUUGAAGAGAUUUAUGUAACAGCCCU-----GUAAAAUCUCAUCCAACCUCAU
........((((.((.((((.((((((((((.....(((.......................))).....)))))))))).)))).))..)))-----)..................... ( -20.50)
>DroYak_CAF1 8874 115 - 1
GCUCUAUUCAGAGUGCUAUAGAAAUCUCUUCUCACCGAAUUCCAACCAAAUUUACAUAGACUUUCGGCUUGAAGAAAUUUAUGUAACACCCCU-----GUACAAUCUCAUCCAACCUCAU
........(((.(((.((((.((((.(((((...(((((.......................)))))...))))).)))).)))).)))..))-----)..................... ( -18.80)
>consensus
GCUCU___CAGGAUGCUAUAAAAAUUUCUUCGCACAGAAUUCUAAUCAAAUUAACAAAGACCUUCGGCUUGAAGAAAUUUAUGUAACACCCCU_____ACACAAUCUUAUCCAAUCUCAU
..........((.((.((((.((((((((((.....(((.((................))..))).....)))))))))).)))).)).))............................. (-12.29 = -12.01 +  -0.28)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:28 2006