Locus 2113

Sequence ID 3R_DroMel_CAF1
Location 6,032,903 – 6,033,038
Length 135
Max. P 0.978744
window3454 window3455

overview

Window 4

Location 6,032,903 – 6,033,013
Length 110
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -26.78
Consensus MFE -14.82
Energy contribution -15.26
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.85
Structure conservation index 0.55
SVM decision value 0.18
SVM RNA-class probability 0.623106
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6032903 110 - 27905053
AGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUUAGUAAGGAGACUUUUUUAUGUAUACACACACACACAGAU-GGGUAUCGCUCUGCGAGG-GGAAAAGUAGUCCCAGGU
.((((((((((((((((....)))))))))).))))))..(((.((((((((.....(((...((........)-).)))((((...))))..-))))))))..)))..... ( -28.80)
>DroSec_CAF1 38932 86 - 1
AGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUAAGGAGACUU------------------------AU-GGGUAUCGCGCUGCGAGG-GGAAAAGUCGUCCCAGGU
.......((((((((((....))))))))))(((..(((((....)))------------------------))-..)))((((...)))).(-(((.......)))).... ( -27.10)
>DroSim_CAF1 39250 87 - 1
AGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUAAGGAGACUU------------------------AU-GGGUAUCGCGCUGCAAGGGGGAAAAGUCGUCCCAGGU
(((....((((((((((....))))))))))(((..(((((....)))------------------------))-..)))....)))....((((((....)).)))).... ( -26.90)
>DroEre_CAF1 39316 84 - 1
AGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUACGGA--------------UACAC----------AU-GGGUAUC--GCUGCGAGG-GGAAAAGGAGUCCCAGGU
(((....((((((((((....))))))))))..........((--------------(((..----------..-..)))))--))).....(-(((.......)))).... ( -23.70)
>DroYak_CAF1 40888 100 - 1
AGCUAAUUGUGCAUUCGGACAUGGGUGCAUAUAUAAAUAAGGAGACUUAUCUGCAUAUACAC----------AUUUGGUAUC-UGCUGCGAGG-GGAAACGGAGUCCCAGGU
.((....((((((((((....)))))))))).....(((((....)))))..(((.((((.(----------....))))).-))).))...(-(((.......)))).... ( -27.40)
>consensus
AGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUAAGGAGACUU_________UACAC__________AU_GGGUAUCGCGCUGCGAGG_GGAAAAGUAGUCCCAGGU
.((....((((((((((....)))))))))).......(((....))).......................................))...(.(((.......)))).... (-14.82 = -15.26 +   0.44)

alignment

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secondary structure

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dotplot

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Window 5

Location 6,032,938 – 6,033,038
Length 100
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -22.45
Consensus MFE -12.98
Energy contribution -13.23
Covariance contribution 0.25
Combinations/Pair 1.15
Mean z-score -2.48
Structure conservation index 0.58
SVM decision value 1.82
SVM RNA-class probability 0.978744
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6032938 100 - 27905053
ACUA----UGCCUGAGUGAUAUAUGGCCCAGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUUAGUAAGGAGACUUUUUUAUGUAUACACACACACACAGAU-G
.((.----((..((.(((((((((((....((((((((((((((((....)))))))))).))))))(((....)))..)))))))).))).))..)).))..-. ( -29.20)
>DroSec_CAF1 38967 76 - 1
ACUA----UGCCUGAGUGAUAUAUGGCCCAGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUAAGGAGACUU------------------------AU-G
.(((----((.((((((((((..((((...))))..))).))))))).)))))............(((((....)))------------------------))-. ( -23.20)
>DroSim_CAF1 39286 76 - 1
ACUA----UGCCUGAGUGAUAUAUGGCCCAGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUAAGGAGACUU------------------------AU-G
.(((----((.((((((((((..((((...))))..))).))))))).)))))............(((((....)))------------------------))-. ( -23.20)
>DroEre_CAF1 39349 76 - 1
ACUA----UGCCUGAGUGAUAUAUGGCCCAGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUACGGA--------------UACAC----------AU-G
.(((----((.((((((((((..((((...))))..))).))))))).)))))...................--------------.....----------..-. ( -17.50)
>DroYak_CAF1 40922 91 - 1
ACUA----UGCCUGAGUGAUAUAUGGCCAAGCUAAUUGUGCAUUCGGACAUGGGUGCAUAUAUAAAUAAGGAGACUUAUCUGCAUAUACAC----------AUUU
.(((----((.((((((((((..((((...))))..))).))))))).)))))(((.((((.((.(((((....))))).)).)))).)))----------.... ( -28.00)
>DroPer_CAF1 36720 82 - 1
ACUACAUUUGCCUGCCUGAUAUAUGGCCACGCUAAUUGUGUAUUCAGAUAUCACUGCAUAUAUAAAUAAAGAC------------AUAGAC----------AU-G
.(((.....((..(((........)))...))...((((((((.(((......))).))))))))........------------.)))..----------..-. ( -13.60)
>consensus
ACUA____UGCCUGAGUGAUAUAUGGCCCAGCUAAUUGUGCAUUCAGACAUGGGUGCAUAUAUAAAUAAGGAGACUU_________UACAC__________AU_G
..........(((.....((((.((((...))))...(((((((((....))))))))))))).....))).................................. (-12.98 = -13.23 +   0.25)

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 10:27:44 2006