Locus 8640

Sequence ID X_DroMel_CAF1
Location 21,738,731 – 21,738,830
Length 99
Max. P 0.705143
window14199 window14200

overview

Window 9

Location 21,738,731 – 21,738,830
Length 99
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 74.65
Mean single sequence MFE -17.09
Consensus MFE -4.88
Energy contribution -4.92
Covariance contribution 0.04
Combinations/Pair 1.14
Mean z-score -1.70
Structure conservation index 0.29
SVM decision value 0.11
SVM RNA-class probability 0.590327
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21738731 99 + 22224390
U-UUCGCCUAAUAGUUGUCACGAUAAACUUUUGCAAAAUAUGUUGCGUCUACAGCAAUGAUUUAUACUUAAUUACCU-UGUUUUGAAAUGACGACAACC----AA
.-...........((((((((((.......)))((((((((((((......))))).(((((.......)))))...-)))))))...)))))))....----.. ( -15.30)
>DroSec_CAF1 30351 83 + 1
U-UUCGCCUAAUAGUUGUCAUGAUAAACUUUUGCAAAAUAUAUA--------------UAUUUAUACUUAAUUACCUUUGUUUUGCAAUGA---CAACC----AA
.-...........((((((((..........(((((((((....--------------...(((....))).......)))))))))))))---)))).----.. ( -15.64)
>DroSim_CAF1 30746 82 + 1
U-UUCGCCUAAUAGUUGUCAUGAUAAACUUUUGCAAAAUAUAUA--------------UAUUUAUACUUAAUUACCU-UGUUUUGCAAUGA---CAACC----AA
.-...........((((((((..........(((((((((....--------------...(((....)))......-)))))))))))))---)))).----.. ( -15.22)
>DroEre_CAF1 29586 97 + 1
UUUUCGCUUUAUAGUUGUUAUGAUAAACUUUUGCAGAAUAUGUUGCUUGU---GCAAUAAUCUAUACUUAAGUACAU-CGUCUUGCAAUGAUGACUACC----AA
........((((.(((((.(((((..((((..(.(((...((((((....---)))))).)))...)..))))..))-)))...))))).)))).....----.. ( -16.00)
>DroYak_CAF1 30730 101 + 1
UUUUCGCCUAAUAGUGGUUAUGACACACUUUUGCAGAAUAUGUUGGUUGUACAGCAAUGAUCUAUGCUA---UGCUA-UGUUUUGCAAUGAUGACAACCAACCAA
..(((((.....((((((....)).))))...)).)))...(((((((((..((((........)))).---(((..-......)))......)))))))))... ( -23.30)
>consensus
U_UUCGCCUAAUAGUUGUCAUGAUAAACUUUUGCAAAAUAUGUUG__U_U___GCAAUGAUUUAUACUUAAUUACCU_UGUUUUGCAAUGA_GACAACC____AA
............((((.........)))).((((((((((......................................))))))))))................. ( -4.88 =  -4.92 +   0.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,738,731 – 21,738,830
Length 99
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 74.65
Mean single sequence MFE -17.76
Consensus MFE -2.26
Energy contribution -2.34
Covariance contribution 0.08
Combinations/Pair 1.11
Mean z-score -1.56
Structure conservation index 0.13
SVM decision value 0.36
SVM RNA-class probability 0.705143
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21738731 99 - 22224390
UU----GGUUGUCGUCAUUUCAAAACA-AGGUAAUUAAGUAUAAAUCAUUGCUGUAGACGCAACAUAUUUUGCAAAAGUUUAUCGUGACAACUAUUAGGCGAA-A
.(----((((((((..((....((((.-..((.....((((........))))....))((((......))))....))))))..))))))))).........-. ( -17.20)
>DroSec_CAF1 30351 83 - 1
UU----GGUUG---UCAUUGCAAAACAAAGGUAAUUAAGUAUAAAUA--------------UAUAUAUUUUGCAAAAGUUUAUCAUGACAACUAUUAGGCGAA-A
.(----(((((---(((((((((((.....(((.(((....))).))--------------).....)))))))..........)))))))))).........-. ( -15.90)
>DroSim_CAF1 30746 82 - 1
UU----GGUUG---UCAUUGCAAAACA-AGGUAAUUAAGUAUAAAUA--------------UAUAUAUUUUGCAAAAGUUUAUCAUGACAACUAUUAGGCGAA-A
.(----(((((---(((((((((((..-..(((.(((....))).))--------------).....)))))))..........)))))))))).........-. ( -15.50)
>DroEre_CAF1 29586 97 - 1
UU----GGUAGUCAUCAUUGCAAGACG-AUGUACUUAAGUAUAGAUUAUUGC---ACAAGCAACAUAUUCUGCAAAAGUUUAUCAUAACAACUAUAAAGCGAAAA
.(----(((((.(.....(((((....-.(((((....))))).....))))---)...(((........)))....).)))))).................... ( -14.70)
>DroYak_CAF1 30730 101 - 1
UUGGUUGGUUGUCAUCAUUGCAAAACA-UAGCA---UAGCAUAGAUCAUUGCUGUACAACCAACAUAUUCUGCAAAAGUGUGUCAUAACCACUAUUAGGCGAAAA
...(((((((((.......((......-..))(---(((((........)))))))))))))))...(((.((...((((.((....)))))).....))))).. ( -25.50)
>consensus
UU____GGUUGUC_UCAUUGCAAAACA_AGGUAAUUAAGUAUAAAUAAUUGC___A_A__CAACAUAUUUUGCAAAAGUUUAUCAUGACAACUAUUAGGCGAA_A
....................................................................(((((...((((.........)))).....))))).. ( -2.26 =  -2.34 +   0.08)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:08 2006