Locus 7522

Sequence ID X_DroMel_CAF1
Location 18,783,986 – 18,784,114
Length 128
Max. P 0.995899
window12344 window12345 window12346

overview

Window 4

Location 18,783,986 – 18,784,091
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.10
Mean single sequence MFE -30.04
Consensus MFE -19.42
Energy contribution -19.30
Covariance contribution -0.12
Combinations/Pair 1.11
Mean z-score -1.67
Structure conservation index 0.65
SVM decision value 0.13
SVM RNA-class probability 0.596889
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18783986 105 + 22224390
GUUAUUACAGGU--------------CAACAUUUUUUUUUCUUGUUUAA-UAAGCCACUGGUGCGAGUUCCACCUACGCCUCUGCAAAAAAGGGAGUAGGUGUUGACUGUGCAACAACAA
(((..(((((.(--------------((((..........(((((....-...(((...))))))))....((((((..((((.......)))).)))))))))))))))).)))..... ( -26.31)
>DroSec_CAF1 30528 115 + 1
GUUAUUAGAGGUCGAUUAGGCGUAGUCAACAUUU---UUUCUUUUUUAU-AAACCCCCUGGUGCGAAUUCCACCUACGCCUCUGCAAA-AAGGGAGUAGGUGUUGACUGUGCAACAACAA
...................(((((((((((((((---((((((((((..-.........((((.(....)))))...((....)))))-))))))).)))))))))))))))........ ( -31.20)
>DroSim_CAF1 14882 116 + 1
GUUAUUAGAGGUCGAUUAGGCGUAGUCAACAUUUU--UUUCUUUUUUAU-AAACCCCCUGGUGCGAAUUCCACCUACGCCCCUGCAAA-AAGGGAGUAGGUGUUGACUGUGCAACAACAA
...................(((((((((((.....--............-..(((....))).........((((((..((((.....-.)))).)))))))))))))))))........ ( -32.10)
>DroEre_CAF1 28904 101 + 1
GUUAUUU-AGGUU----------AAUCAACGUAUU---UUAU--UUUGU-AAACCCCCUGUUGCGAGUUUCGCCUACGCCUCUGUAA--AAGGGAGUAGGUGUUGACUGUGCAACAACAA
.......-.((((----------...(((.(((..---.)))--.))).-.))))...(((((((((((.(((((((..((((....--.)))).)))))))..)))).))))))).... ( -30.20)
>DroYak_CAF1 28778 115 + 1
GUUAUUAGAGGUCGAUUGUGCAGAAUACACAUCUU---UUAU--UUUAUUAAGCCCCCUGUGGCGAAUUGCACCUACGCCUCUGCAAAAAAGGGAGUAGGUGUUGACUGUGCAACAACAA
..........((.(.(((..(((............---....--........(((......))).....((((((((..((((.......)))).))))))))...)))..)))).)).. ( -30.40)
>consensus
GUUAUUAGAGGUCGAUU__GC__AAUCAACAUUUU__UUUCUU_UUUAU_AAACCCCCUGGUGCGAAUUCCACCUACGCCUCUGCAAA_AAGGGAGUAGGUGUUGACUGUGCAACAACAA
..........................................................((.((((..(..(((((((..((((.......)))).)))))))..)....)))).)).... (-19.42 = -19.30 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,783,986 – 18,784,091
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.10
Mean single sequence MFE -28.60
Consensus MFE -16.95
Energy contribution -17.55
Covariance contribution 0.60
Combinations/Pair 1.07
Mean z-score -1.78
Structure conservation index 0.59
SVM decision value 0.10
SVM RNA-class probability 0.582563
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18783986 105 - 22224390
UUGUUGUUGCACAGUCAACACCUACUCCCUUUUUUGCAGAGGCGUAGGUGGAACUCGCACCAGUGGCUUA-UUAAACAAGAAAAAAAAAUGUUG--------------ACCUGUAAUAAC
..(((((((((..((((((((((((..(((((.....))))).)))))).....((((....))))....-...................))))--------------)).))))))))) ( -28.80)
>DroSec_CAF1 30528 115 - 1
UUGUUGUUGCACAGUCAACACCUACUCCCUU-UUUGCAGAGGCGUAGGUGGAAUUCGCACCAGGGGGUUU-AUAAAAAAGAAA---AAAUGUUGACUACGCCUAAUCGACCUCUAAUAAC
..((((..((..(((((((((((((..((((-......)))).)))))).((((((.(....).))))))-............---....)))))))..)).....)))).......... ( -28.10)
>DroSim_CAF1 14882 116 - 1
UUGUUGUUGCACAGUCAACACCUACUCCCUU-UUUGCAGGGGCGUAGGUGGAAUUCGCACCAGGGGGUUU-AUAAAAAAGAAA--AAAAUGUUGACUACGCCUAAUCGACCUCUAAUAAC
..((((..((..(((((((((((((.(((((-.....))))).)))))).((((((.(....).))))))-............--.....)))))))..)).....)))).......... ( -31.90)
>DroEre_CAF1 28904 101 - 1
UUGUUGUUGCACAGUCAACACCUACUCCCUU--UUACAGAGGCGUAGGCGAAACUCGCAACAGGGGGUUU-ACAAA--AUAA---AAUACGUUGAUU----------AACCU-AAAUAAC
..((((((....(((((((.(((((..((((--.....)))).)))))..((((((.(....).))))))-.....--....---.....)))))))----------.....-.)))))) ( -25.00)
>DroYak_CAF1 28778 115 - 1
UUGUUGUUGCACAGUCAACACCUACUCCCUUUUUUGCAGAGGCGUAGGUGCAAUUCGCCACAGGGGGCUUAAUAAA--AUAA---AAGAUGUGUAUUCUGCACAAUCGACCUCUAAUAAC
..(((((((....(((..(((((((..(((((.....))))).)))))))......(((......)))........--....---..(((((((.....)))).))))))...))))))) ( -29.20)
>consensus
UUGUUGUUGCACAGUCAACACCUACUCCCUU_UUUGCAGAGGCGUAGGUGGAAUUCGCACCAGGGGGUUU_AUAAA_AAGAAA__AAAAUGUUGACU__GC__AAUCGACCUCUAAUAAC
..((((((((..(((...(((((((..((((.......)))).)))))))..))).))...(((((...........................................))))))))))) (-16.95 = -17.55 +   0.60)

alignment

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secondary structure

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dotplot

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Window 6

Location 18,784,012 – 18,784,114
Length 102
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 90.87
Mean single sequence MFE -28.38
Consensus MFE -23.76
Energy contribution -24.04
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -2.45
Structure conservation index 0.84
SVM decision value 2.63
SVM RNA-class probability 0.995899
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18784012 102 + 22224390
CUUGUUUAA-UAAGCCACUGGUGCGAGUUCCACCUACGCCUCUGCAAAAAAGGGAGUAGGUGUUGACUGUGCAACAACAAAGUUGGCAAUAAAAAUGCAACCA
.........-...((((((.(((((((((.(((((((..((((.......)))).)))))))..)))).))).)).....)).))))................ ( -27.90)
>DroSec_CAF1 30565 101 + 1
CUUUUUUAU-AAACCCCCUGGUGCGAAUUCCACCUACGCCUCUGCAAA-AAGGGAGUAGGUGUUGACUGUGCAACAACAAAGUUGGCAAUAAAAAUGCAACCA
.........-.........((((((......((((((..((((.....-.)))).))))))((..(((.((......)).)))..))........))).))). ( -26.50)
>DroSim_CAF1 14920 101 + 1
CUUUUUUAU-AAACCCCCUGGUGCGAAUUCCACCUACGCCCCUGCAAA-AAGGGAGUAGGUGUUGACUGUGCAACAACAAAGUUGGCAAUAAAAAUGCAACCA
.........-.........((((((......((((((..((((.....-.)))).))))))((..(((.((......)).)))..))........))).))). ( -29.50)
>DroEre_CAF1 28930 98 + 1
AU--UUUGU-AAACCCCCUGUUGCGAGUUUCGCCUACGCCUCUGUAA--AAGGGAGUAGGUGUUGACUGUGCAACAACAAAGUUGGCAAUAAAAAUGCAACCA
..--.((((-.(((....(((((((((((.(((((((..((((....--.)))).)))))))..)))).))))))).....))).)))).............. ( -30.50)
>DroYak_CAF1 28815 101 + 1
AU--UUUAUUAAGCCCCCUGUGGCGAAUUGCACCUACGCCUCUGCAAAAAAGGGAGUAGGUGUUGACUGUGCAACAACAAAGUUGGCAAUAAAAAUGCAACCA
..--........(((......)))...((((((((((..((((.......)))).)))))(((..(((.((......)).)))..))).......)))))... ( -27.50)
>consensus
CUU_UUUAU_AAACCCCCUGGUGCGAAUUCCACCUACGCCUCUGCAAA_AAGGGAGUAGGUGUUGACUGUGCAACAACAAAGUUGGCAAUAAAAAUGCAACCA
...................((((((......((((((..((((.......)))).))))))((..(((.((......)).)))..))........))).))). (-23.76 = -24.04 +   0.28)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:05 2006