Locus 6191

Sequence ID 2L_DroMel_CAF1
Location 17,264,698 – 17,264,803
Length 105
Max. P 0.989488
window9892 window9893

overview

Window 2

Location 17,264,698 – 17,264,803
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.00
Mean single sequence MFE -28.50
Consensus MFE -17.68
Energy contribution -18.24
Covariance contribution 0.56
Combinations/Pair 1.21
Mean z-score -2.61
Structure conservation index 0.62
SVM decision value 2.17
SVM RNA-class probability 0.989488
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17264698 105 + 22407834
UAUCACAGAACUUUGAGUGUUGCAGAUAAGUA-----CUGCAA-AAAAAGUUGAAGAAACUAGU--------CGGUAGCUGUGUUCUGCACUGAAAAAGCUGAGAUAUAUAAUUAU-AUG
((((.(((..(((..(.(.((((((.......-----))))))-....).)..))).......(--------((((.((........))))))).....))).)))).........-... ( -23.30)
>DroSec_CAF1 107337 108 + 1
UAUCACAGAACUUUAAGUGGUGCAGAUAAGUG-----CUGCGAUGGAAAGUUGAAGCAACUAGU-------UCGGUAGCUGUGUUCUGCACUAAGGAAGCUGUAAUAUAUAAUUACAAUG
(((.((((..((((...(((((((((.....(-----((((..((((.(((((...)))))..)-------)))))))).....)))))))))..)))))))).)))............. ( -31.20)
>DroSim_CAF1 112413 103 + 1
UAUCACAGAACUUUAAGUGGUGCAGAUAAGUG-----CUGCAA-GGAAAGUUGAAGCAACUAGU-------GAGGUAGCUGUGUUCUGUACUAAAGAAGCUGUGAUAUAUAAUU----UU
((((((((..((((...(((((((((.....(-----((((..-....(((((...)))))...-------...))))).....)))))))))..)))))))))))).......----.. ( -34.20)
>DroEre_CAF1 106668 111 + 1
UAUCACGGAACUUUAAGUGGUGCAGAUAAGUG-----CUGCAA-GUAGAGUUGAAGAAACUAUAGCUGCUAUAGGUACCUGUGUUCUGUAUUCAAGAAGCUGUGAUACAUUA---AACUG
(((((((((((((((.(..(..(......)..-----)..)..-.)))))))...(((..(((((..((.((((....)))))).))))))))......)))))))).....---..... ( -29.10)
>DroYak_CAF1 109471 108 + 1
UAUCACAGAACUUUAAGUGGUGCAGAUAAGUACCAUACUGCAA-GUAAUGUUGAAGAAACU-----------AGGUACCUGUGUUCUGUAUUCAAGAUGCUGAGAUACAUAAUAAUAUUG
(((((((((((.....(((((((......)))))))...(((.-(((..(((.....))).-----------...))).))))))))))..(((......)))))))............. ( -24.70)
>consensus
UAUCACAGAACUUUAAGUGGUGCAGAUAAGUG_____CUGCAA_GGAAAGUUGAAGAAACUAGU________AGGUAGCUGUGUUCUGUACUAAAGAAGCUGUGAUAUAUAAUUAUAAUG
((((((((..((((...(((((((((...(((......))).......((((.....)))).......................)))))))))..))))))))))))............. (-17.68 = -18.24 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,264,698 – 17,264,803
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.00
Mean single sequence MFE -20.80
Consensus MFE -12.04
Energy contribution -12.00
Covariance contribution -0.04
Combinations/Pair 1.07
Mean z-score -2.34
Structure conservation index 0.58
SVM decision value 1.45
SVM RNA-class probability 0.954813
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17264698 105 - 22407834
CAU-AUAAUUAUAUAUCUCAGCUUUUUCAGUGCAGAACACAGCUACCG--------ACUAGUUUCUUCAACUUUUU-UUGCAG-----UACUUAUCUGCAACACUCAAAGUUCUGUGAUA
...-.........((((.(((..((((.((((..(((...(((((...--------..)))))..)))........-((((((-----.......)))))))))).))))..))).)))) ( -20.70)
>DroSec_CAF1 107337 108 - 1
CAUUGUAAUUAUAUAUUACAGCUUCCUUAGUGCAGAACACAGCUACCGA-------ACUAGUUGCUUCAACUUUCCAUCGCAG-----CACUUAUCUGCACCACUUAAAGUUCUGUGAUA
.............(((((((((((.....(((((((.....(((..(((-------...(((((...))))).....))).))-----).....)))))))......)))..)))))))) ( -23.30)
>DroSim_CAF1 112413 103 - 1
AA----AAUUAUAUAUCACAGCUUCUUUAGUACAGAACACAGCUACCUC-------ACUAGUUGCUUCAACUUUCC-UUGCAG-----CACUUAUCUGCACCACUUAAAGUUCUGUGAUA
..----.......((((((((...(((((((...(((..((((((....-------..)))))).)))........-.(((((-----.......)))))..)).)))))..)))))))) ( -23.20)
>DroEre_CAF1 106668 111 - 1
CAGUU---UAAUGUAUCACAGCUUCUUGAAUACAGAACACAGGUACCUAUAGCAGCUAUAGUUUCUUCAACUCUAC-UUGCAG-----CACUUAUCUGCACCACUUAAAGUUCCGUGAUA
.....---.....((((((.(.((((.......)))))...(((.......((((.((.((((.....)))).)).-)))).(-----((......))))))............)))))) ( -17.20)
>DroYak_CAF1 109471 108 - 1
CAAUAUUAUUAUGUAUCUCAGCAUCUUGAAUACAGAACACAGGUACCU-----------AGUUUCUUCAACAUUAC-UUGCAGUAUGGUACUUAUCUGCACCACUUAAAGUUCUGUGAUA
.....(((..((((......))))..))).((((((((.((((((...-----------.(((.....)))..)))-))).....((((.(......).))))......))))))))... ( -19.60)
>consensus
CAUUAUAAUUAUAUAUCACAGCUUCUUGAGUACAGAACACAGCUACCU________ACUAGUUUCUUCAACUUUAC_UUGCAG_____CACUUAUCUGCACCACUUAAAGUUCUGUGAUA
..............................((((((((......................(((.....)))........((((............))))..........))))))))... (-12.04 = -12.00 +  -0.04)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:48 2006