Locus 10115

Sequence ID 3R_DroMel_CAF1
Location 27,121,503 – 27,121,603
Length 100
Max. P 0.931867
window16099 window16100

overview

Window 9

Location 27,121,503 – 27,121,603
Length 100
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 70.29
Mean single sequence MFE -23.44
Consensus MFE -10.35
Energy contribution -11.62
Covariance contribution 1.27
Combinations/Pair 1.29
Mean z-score -2.01
Structure conservation index 0.44
SVM decision value 1.22
SVM RNA-class probability 0.931867
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27121503 100 + 27905053
UGUGAAUGCAGCCAAAGAAAUGCCAGGUCACAAAUGUGCACUGGCAGAAAUGGGGCACAUAUUCUACAAUUAACAUCAUUAAGCAGCCUCAUAU--------GAUAAC
(((((.(((.(((.......((((((..(((....)))..)))))).......))).............((((.....)))))))...))))).--------...... ( -25.44)
>DroSec_CAF1 23494 92 + 1
UGUGAAUGCAGCCAAAGAAAUGCCAGGUCACAAAUGUGCACUUGCAGAAAUGGGGCACGCAUUCGACAAUGCACUUCAUCA--------UAUAU--------GAUAAC
(((((((((.(((.......(((.(((((((....))).))))))).......)))..)))))).))).........((((--------....)--------)))... ( -24.54)
>DroSim_CAF1 25377 92 + 1
UGUGAAUGCAGCCAAAGAAAUGCCAGGUCACAAAUGUGCACUUGCAGAAAUGGGGCACGCAUUCAACAAUGCACUUUAUCA--------UAUAU--------GAUAAC
(((((((((.(((.......(((.(((((((....))).))))))).......)))..)))))).))).......((((((--------....)--------))))). ( -26.44)
>DroEre_CAF1 23392 108 + 1
UGUGAAUGCAGCCAAAGAAAUGCCAGGUCGCAAAUGUGCACUUGCAGAAAUGGGUUACCAAUUCUGCAGUACACUUCAACACCCUGCCUCAUAUCUGCAAUUGGUUUG
.........(((((((((.(((.((((..(.....(((.(((.((((((.(((....))).))))))))).))).....)..))))...))).)))....)))))).. ( -30.40)
>DroYak_CAF1 24780 76 + 1
--------CAGCCAAAGAAAUGCCAGGUUGCAAAUGUGCACUUGUAGAAACAGGAAACUAAAUUU------------AA----CUGACUCAUAU--------GAUACA
--------(((............(((((.(((....)))))))).......((....))......------------..----)))........--------...... ( -10.40)
>consensus
UGUGAAUGCAGCCAAAGAAAUGCCAGGUCACAAAUGUGCACUUGCAGAAAUGGGGCACGAAUUCUACAAUGCACUUCAUCA__C_G_CUCAUAU________GAUAAC
((((((((..(((.......(((.(((((((....))).))))))).......)))...))))).)))........................................ (-10.35 = -11.62 +   1.27)

alignment

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secondary structure

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dotplot

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Window 0

Location 27,121,503 – 27,121,603
Length 100
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 70.29
Mean single sequence MFE -25.38
Consensus MFE -7.04
Energy contribution -9.72
Covariance contribution 2.68
Combinations/Pair 1.26
Mean z-score -1.84
Structure conservation index 0.28
SVM decision value 0.42
SVM RNA-class probability 0.729995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27121503 100 - 27905053
GUUAUC--------AUAUGAGGCUGCUUAAUGAUGUUAAUUGUAGAAUAUGUGCCCCAUUUCUGCCAGUGCACAUUUGUGACCUGGCAUUUCUUUGGCUGCAUUCACA
..((((--------((.((((....)))))))))).....(((.((..(((((((.......((((((..(((....)))..)))))).......))).))))))))) ( -26.24)
>DroSec_CAF1 23494 92 - 1
GUUAUC--------AUAUA--------UGAUGAAGUGCAUUGUCGAAUGCGUGCCCCAUUUCUGCAAGUGCACAUUUGUGACCUGGCAUUUCUUUGGCUGCAUUCACA
.(((((--------(....--------)))))).......(((.(((((((.(((.......(((.((..(((....)))..)).))).......))))))))))))) ( -25.24)
>DroSim_CAF1 25377 92 - 1
GUUAUC--------AUAUA--------UGAUAAAGUGCAUUGUUGAAUGCGUGCCCCAUUUCUGCAAGUGCACAUUUGUGACCUGGCAUUUCUUUGGCUGCAUUCACA
.(((((--------(....--------))))))..........((((((((.(((.......(((.((..(((....)))..)).))).......))))))))))).. ( -25.14)
>DroEre_CAF1 23392 108 - 1
CAAACCAAUUGCAGAUAUGAGGCAGGGUGUUGAAGUGUACUGCAGAAUUGGUAACCCAUUUCUGCAAGUGCACAUUUGCGACCUGGCAUUUCUUUGGCUGCAUUCACA
.........(((((....(((.((((.(((.((.(((((((((((((.(((....))).)))))).))))))).)).))).)))).)...)).....)))))...... ( -39.40)
>DroYak_CAF1 24780 76 - 1
UGUAUC--------AUAUGAGUCAG----UU------------AAAUUUAGUUUCCUGUUUCUACAAGUGCACAUUUGCAACCUGGCAUUUCUUUGGCUG--------
......--------.....((((((----..------------((((((((.....(((....)))..((((....))))..)))).))))..)))))).-------- ( -10.90)
>consensus
GUUAUC________AUAUGAG_C_G__UGAUGAAGUGCAUUGUAGAAUGCGUGCCCCAUUUCUGCAAGUGCACAUUUGUGACCUGGCAUUUCUUUGGCUGCAUUCACA
..................................(((((((((((((............)))))).)))))))...((((.((............)).))))...... ( -7.04 =  -9.72 +   2.68)

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 13:49:11 2006