Locus 7002

Sequence ID 3R_DroMel_CAF1
Location 18,468,374 – 18,468,510
Length 136
Max. P 0.951086
window11350 window11351

overview

Window 0

Location 18,468,374 – 18,468,470
Length 96
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.43
Mean single sequence MFE -30.13
Consensus MFE -19.28
Energy contribution -21.20
Covariance contribution 1.92
Combinations/Pair 1.14
Mean z-score -2.17
Structure conservation index 0.64
SVM decision value 1.41
SVM RNA-class probability 0.951086
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18468374 96 + 27905053
UAUA----------------CGUGUGC---AUAUUGCAUAUGGCU-GUGU----UUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCUGGCAUAUGUGCGAAAAUGCCAACGUUCAUU
...(----------------(((..((---((.((((((((((((-....----..)))).(((..(......)..))).....(((....))).))))))))..))))..))))..... ( -29.00)
>DroSec_CAF1 23612 98 + 1
UAUACGUA---AUA------CGUAUGU---AUAUGGCAUAUGGGU-GUGU--UGUUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCU-------GUGCGAAAAUGCCAACGUUCAUU
........---...------(((((((---.....)))))))(((-(...--(((((((..(((..(......)..))).(((((((...-------..))))))).)))))))..)))) ( -28.90)
>DroSim_CAF1 23351 98 + 1
UACA----------------CGUAUGU---AUAUGGCAUAUGGGU-GUGU--UGUUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUU
....----------------(((((((---.....)))))))(((-(...--(((((((..(((..(......)..))).(((((((.(........).))))))).)))))))..)))) ( -29.60)
>DroEre_CAF1 24035 118 + 1
UAUAUAUGUACAUACUCGCAUCUAUGUACGAUACGGCAUAUGGGU-GUGUGCUGUUGGCCUGGCUGACAUUUCUUGGCCUU-UUUGUCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUU
.......(((((((((((....(((((........))))))))))-)))))).((((((..(((..(......)..)))((-((((..(........)..)))))).))))))....... ( -35.90)
>DroYak_CAF1 24449 103 + 1
UAUAUAUGAGCAUA--------UAUGUAU-AUAUUGCAUAUGGGUUGUGUGC--------UGGCUGACAUUUCUUGGCCUUUUUUGUCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUU
.....((((((.((--------((((((.-....))))))))(((..((..(--------((((.((((...............))))..))))...)..)).....)))...)))))). ( -27.26)
>consensus
UAUA__U____AUA______CGUAUGU___AUAUGGCAUAUGGGU_GUGU__UGUUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUU
....................(((((((........)))))))....(((...(((((((..(((..(......)..))).(((((((.(........).))))))).)))))))..))). (-19.28 = -21.20 +   1.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,468,395 – 18,468,510
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.28
Mean single sequence MFE -36.50
Consensus MFE -25.34
Energy contribution -26.74
Covariance contribution 1.40
Combinations/Pair 1.06
Mean z-score -1.81
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.528518
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18468395 115 + 27905053
UGGCU-GUGU----UUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCUGGCAUAUGUGCGAAAAUGCCAACGUUCAUUGCAAUGCAAUUAAUGAAGAUUGCUGCAGCUGACGCGCACU
.....-((((----(((((..(((..(......)..))).(((((((.(........).))))))).)))))((((..(((((..((((((......)))))))))))..)))).)))). ( -34.00)
>DroSec_CAF1 23640 110 + 1
UGGGU-GUGU--UGUUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCU-------GUGCGAAAAUGCCAACGUUCAUUGCAAUGCAAUUAAUGAAGAUUGCUGCAGCUGACGCGCACU
..(((-((((--.((((((..(((..(......)..))).(((((((...-------..))))))).))))))(((..(((((..((((((......)))))))))))..)))))))))) ( -40.40)
>DroSim_CAF1 23372 117 + 1
UGGGU-GUGU--UGUUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUUGCAAUGCAAUUAAUGAAGAUUGCUGCAGCUGACGCGCAAU
...((-((((--(((((((..(((..(......)..))).(((((((.(........).))))))).)))))).....(((((..((((((......)))))))))))..)))))))... ( -38.90)
>DroEre_CAF1 24075 111 + 1
UGGGU-GUGUGCUGUUGGCCUGGCUGACAUUUCUUGGCCUU-UUUGUCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUUGCAAUGCAAUUAAUGAAGAUUGCUGCAGCUGAC-------
((..(-((....(((..((...))..))).....((((.((-((((..(........)..)))))).)))))))..))(((((..((((((......))))))))))).....------- ( -31.50)
>DroYak_CAF1 24480 112 + 1
UGGGUUGUGUGC--------UGGCUGACAUUUCUUGGCCUUUUUUGUCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUUGCAAUGCAAUUAAUGAAGAUUGGUGCAGCUGGCGCGUACU
..(((...((((--------..((((((...(((((((..((((((..(........)..)))))).)))..((((.(((((...))))).))))))))...)).))))..))))..))) ( -37.70)
>consensus
UGGGU_GUGU__UGUUGGCCUGGCUGACAUUUCUUGGCCUUUUUUGCCCUGCCAUAUGUGCGAAAAUGCCAACGUUCAUUGCAAUGCAAUUAAUGAAGAUUGCUGCAGCUGACGCGCACU
.............((((((..(((..(......)..))).(((((((.(........).))))))).))))))(((..(((((..((((((......)))))))))))..)))....... (-25.34 = -26.74 +   1.40)

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 12:35:15 2006