Locus 7507

Sequence ID 3R_DroMel_CAF1
Location 20,058,261 – 20,058,418
Length 157
Max. P 0.938404
window12124 window12125

overview

Window 4

Location 20,058,261 – 20,058,381
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.62
Mean single sequence MFE -43.50
Consensus MFE -28.03
Energy contribution -29.20
Covariance contribution 1.17
Combinations/Pair 1.22
Mean z-score -1.89
Structure conservation index 0.64
SVM decision value 1.29
SVM RNA-class probability 0.938404
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20058261 120 - 27905053
UGAUCCUGAUCCUCCUGCGCCUGAUCCACCGAGAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCAGCAGAGUGGUUGUGGCGAAUUUCAAAUGCGCCGAAUCCUU
..............(((((.(((..((.((((.(((((((....))))))).)))).))))).)))))(((((((((.((((......))))))).(.....)....))))))....... ( -45.90)
>DroGri_CAF1 4504 92 - 1
----------------------------GCAGCAGCAUUACCAGCGUUGCCAUCUGUCGCAGAGGCAGCGGCGCCCAUCAACAAUGUUGUUGCGGCGAAUUUCAAAUGCGCCGAGUCCUU
----------------------------(((((((((((......((((((.((((...))))))))))((...))......)))))))))))((((...........))))........ ( -34.00)
>DroEre_CAF1 3118 112 - 1
--------AUCCUCCUGCACCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCAGCAGAGUGGUUGCGGCGAAUUUCAAAUGCGCCGAAUCCUU
--------...((((((((.(((..((.((((((((((((....)))))))))))).))))).)))))..((........)).))).((...(((((...........)))))...)).. ( -47.50)
>DroWil_CAF1 457 102 - 1
------------------GGCGGCAGCGGUGGUAGCAGCGCCAGCGUUGCUAUCGACUGCAGCUGCAGCAGCGCCCAUUAGCAAUGUGGUGGCAGCAAAUUUCAAAUGUGCCGAAUCCUU
------------------..((((((((((((((((((((....)))))))))).))))).(((((.(((..((......))..)))....)))))............)))))....... ( -45.40)
>DroYak_CAF1 946 112 - 1
--------AUCCUCCUGCACCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCAGCAAAGUGGUUGCGGCGAAUUUCAAAUGCGCCGAAUCCUU
--------......(((((.(((..((.((((((((((((....)))))))))))).))))).)))))((((((......((((.....))))...(.....)....))))))....... ( -47.40)
>DroAna_CAF1 3798 104 - 1
-------------C---CUCCUCCUCCGCUGGUAGCAGCGCCAGCGUUGCUAUCCACAGCAGCAGCGGCGGCGCCCAUCAGCAGAGUGGUUGCGGCGAAUUUCAAAUGCGCCGAAUCCUU
-------------.---......(((.((((((.((..((((.((((((((......)))))).))))))..))..)))))).))).((...(((((...........)))))...)).. ( -40.80)
>consensus
_____________C___CACCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCAGCAAAGUGGUUGCGGCGAAUUUCAAAUGCGCCGAAUCCUU
.............................(((((((((((....)))))))))))...((((((((....((........))...))))))))((((.((.....)).))))........ (-28.03 = -29.20 +   1.17)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 20,058,301 – 20,058,418
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 82.12
Mean single sequence MFE -44.82
Consensus MFE -38.42
Energy contribution -39.80
Covariance contribution 1.38
Combinations/Pair 1.09
Mean z-score -2.17
Structure conservation index 0.86
SVM decision value 1.12
SVM RNA-class probability 0.919032
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20058301 117 - 27905053
CCAUUCUGGCCCCGCCUACCGCUCCUACUGAUGAUGAUGAUCCUGAUCCUCCUGCGCCUGAUCCACCGAGAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCA
.......(((.(((((...................((.(((....))).))..(((.(((..((.((((.(((((((....))))))).)))).))))).)))))))).)))..... ( -44.30)
>DroSec_CAF1 473 117 - 1
CCAUUCUGGCCCCGCCUACCGCUCCUACUGAUGAUGAUGAUCCUGAUCCUCCUGCGCCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCA
.......(((.(((((...................((.(((....))).))..(((.(((..((.((((((((((((....)))))))))))).))))).)))))))).)))..... ( -47.80)
>DroSim_CAF1 929 117 - 1
CCAUUCUGGCCCCGCCUACCGCUCCUACUGAUGAUGAUGAUCCUGAUCCUCCUGCGCCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCA
.......(((.(((((...................((.(((....))).))..(((.(((..((.((((((((((((....)))))))))))).))))).)))))))).)))..... ( -47.80)
>DroEre_CAF1 3158 108 - 1
CCAUUCUGGCCCCGCCUCCCGCUCCGCCAGAUGAUG---------AUCCUCCUGCACCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCA
....((((((...((.....))...))))))(((((---------..(((.(((((.(((..((.((((((((((((....)))))))))))).))))).))))).)).)..))))) ( -50.10)
>DroYak_CAF1 986 108 - 1
CCAUUCUGGCCCCGCCUCCCGCUCCACCAGAUGAUG---------AUCCUCCUGCACCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCA
.......(((.(((((.............(((....---------))).....(((.(((..((.((((((((((((....)))))))))))).))))).)))))))).)))..... ( -46.90)
>DroAna_CAF1 3838 89 - 1
CCGGUUUGGACC-ACCGGCAGCACCU------------------------C---CUCCUCCUCCGCUGGUAGCAGCGCCAGCGUUGCUAUCCACAGCAGCAGCGGCGGCGCCCAUCA
(((((.......-)))))..((.((.------------------------(---(.........((((((......))))))((((((......))))))...)).)).))...... ( -32.00)
>consensus
CCAUUCUGGCCCCGCCUACCGCUCCUACUGAUGAUG_________AUCCUCCUGCGCCUGAUCCACCGGUAGCAGCGCCAGCGUUGCUAUCGGCGGCAGCUGCGGCGGCGCCCAUCA
.......(((.(((((.............((.(((.(......).))).))..(((.(((..((.((((((((((((....)))))))))))).))))).)))))))).)))..... (-38.42 = -39.80 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:38 2006