Locus 6259

Sequence ID X_DroMel_CAF1
Location 15,924,565 – 15,924,667
Length 102
Max. P 0.995213
window10199 window10200

overview

Window 9

Location 15,924,565 – 15,924,667
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.44
Mean single sequence MFE -29.66
Consensus MFE -6.53
Energy contribution -7.18
Covariance contribution 0.65
Combinations/Pair 1.21
Mean z-score -2.54
Structure conservation index 0.22
SVM decision value 2.55
SVM RNA-class probability 0.995213
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15924565 102 + 22224390
AGCUCAAGCCAACUAAAGUACCCUACUGUAAAAGCUUUGG----GUAUUCAAAUCUUGUGCACCCUUCG---GUUU---------G--CUCUUUCAUCUUUUGAGCUACGAAAGUUUGAA
((((((((........(((((((....((....))...))----)))))........(.(((..(....---)..)---------)--).)........))))))))((....))..... ( -24.70)
>DroSec_CAF1 23306 101 + 1
AGCUCAAGCUAACUAAAGUACCCUACUGUAAAAGCUUUGG----GUAUUCAAAUCUUGUACACCCUUCG----UUA---------G--CUCUUUCAUCUUGUGAGCUAUGAAAGUUUGAA
...(((((((......(((((((....((....))...))----)))))................((((----(.(---------(--(((...........))))))))))))))))). ( -24.40)
>DroSim_CAF1 7993 85 + 1
AGCUCA-GCUA-CU-AAGUAC-CUACUGUAA-AGCUUUGG----GUAUC--AAUC-UGUGCA--CUUCG-----UA---------G--CUCU-UCAUCUU-UGAGCUAUGAAG---UCGA
.((.((-(...-..-..((((-(((..(...-..)..)))----)))).--...)-)).))(--(((((-----((---------(--(((.-.......-.)))))))))))---)... ( -29.20)
>DroEre_CAF1 16711 118 + 1
AGCUCAAGCCAACUAAAGUACCCUACAGUAAGUGGAUUGGGUGGGUGUUCAAAUUUUGUGCACCCUUCGUUAGUUUGAGUGCCGAG--CCCUUUCAUAAUUUGGGUUAUGAAAGUUCGAA
.((((((((.(((......((((..((.....))....))))((((((.((.....)).))))))...))).))))))))..((((--(..(((((((((....)))))))))))))).. ( -39.50)
>DroYak_CAF1 7904 114 + 1
AGCUCAAGCUAACUUAAGUUGUCUAUAGUAAGAGGUUUGG----GUGUUGAAAUGUUGUGCCCUCUUCGU--GCUUGAGUGCCGAGAACCCCUUCAUAUUUGGAGUUAUGAAAGUUCGAA
.((((((((((((....))))..........((((...((----(..(.........)..))).))))..--)))))))).....((((...((((((........)))))).))))... ( -30.50)
>consensus
AGCUCAAGCUAACUAAAGUACCCUACUGUAAAAGCUUUGG____GUAUUCAAAUCUUGUGCACCCUUCG___GUUU_________G__CUCUUUCAUCUUUUGAGCUAUGAAAGUUUGAA
((((((((....(((((((..............)))))))....((((.........))))......................................))))))))............. ( -6.53 =  -7.18 +   0.65)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,924,565 – 15,924,667
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.44
Mean single sequence MFE -26.44
Consensus MFE -4.78
Energy contribution -4.86
Covariance contribution 0.08
Combinations/Pair 1.30
Mean z-score -2.10
Structure conservation index 0.18
SVM decision value 1.48
SVM RNA-class probability 0.957759
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15924565 102 - 22224390
UUCAAACUUUCGUAGCUCAAAAGAUGAAAGAG--C---------AAAC---CGAAGGGUGCACAAGAUUUGAAUAC----CCAAAGCUUUUACAGUAGGGUACUUUAGUUGGCUUGAGCU
......((((((..((((...........)))--)---------....---))))))..((.((((..((((((((----((...(((.....))).))))).)))))....)))).)). ( -24.30)
>DroSec_CAF1 23306 101 - 1
UUCAAACUUUCAUAGCUCACAAGAUGAAAGAG--C---------UAA----CGAAGGGUGUACAAGAUUUGAAUAC----CCAAAGCUUUUACAGUAGGGUACUUUAGUUAGCUUGAGCU
.............(((((.(.....)...(((--(---------(((----(...((((((.((.....)).))))----))...(((((......)))))......))))))))))))) ( -26.10)
>DroSim_CAF1 7993 85 - 1
UCGA---CUUCAUAGCUCA-AAGAUGA-AGAG--C---------UA-----CGAAG--UGCACA-GAUU--GAUAC----CCAAAGCU-UUACAGUAG-GUACUU-AG-UAGC-UGAGCU
...(---((((.((((((.-.......-.)))--)---------))-----.))))--)((.((-((((--(((((----(....(((-....))).)-))).))-))-)..)-)).)). ( -22.10)
>DroEre_CAF1 16711 118 - 1
UUCGAACUUUCAUAACCCAAAUUAUGAAAGGG--CUCGGCACUCAAACUAACGAAGGGUGCACAAAAUUUGAACACCCACCCAAUCCACUUACUGUAGGGUACUUUAGUUGGCUUGAGCU
......(((((((((......)))))))))((--((((((.....((((((.(..(((((..((.....))..)))))((((...............)))).).)))))).)).)))))) ( -34.26)
>DroYak_CAF1 7904 114 - 1
UUCGAACUUUCAUAACUCCAAAUAUGAAGGGGUUCUCGGCACUCAAGC--ACGAAGAGGGCACAACAUUUCAACAC----CCAAACCUCUUACUAUAGACAACUUAAGUUAGCUUGAGCU
.((((.((((((((........)))))))).....))))..(((((((--...((((((.................----.....)))))).........(((....))).))))))).. ( -25.45)
>consensus
UUCAAACUUUCAUAGCUCAAAAGAUGAAAGAG__C_________AAAC___CGAAGGGUGCACAAGAUUUGAAUAC____CCAAAGCUCUUACAGUAGGGUACUUUAGUUAGCUUGAGCU
......(((((((..........)))))))................................................................................(((....))) ( -4.78 =  -4.86 +   0.08)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:44 2006