Locus 1726

Sequence ID 2R_DroMel_CAF1
Location 6,500,642 – 6,500,741
Length 99
Max. P 0.878588
window2887 window2888

overview

Window 7

Location 6,500,642 – 6,500,741
Length 99
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 77.29
Mean single sequence MFE -20.98
Consensus MFE -15.65
Energy contribution -15.52
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -1.40
Structure conservation index 0.75
SVM decision value 0.90
SVM RNA-class probability 0.878588
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6500642 99 + 20766785
AGACUUGGCUUAAAACUUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGCUUUCCUCCCAUUUUCC-CGCUGCC----------
......(((...........((((((.((((((((...))))))))(((........)))..))))))...((((................)-))).)))---------- ( -20.89)
>DroVir_CAF1 48960 78 + 1
AUAUACAGCCUAAAACUUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGCCA--------------------------------
.......(((...........((..((((((((((...))))))))))))...............((....)))))..-------------------------------- ( -16.90)
>DroEre_CAF1 70080 99 + 1
GGACUUGGCUUAAAACGUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGCUUUCCUCCCAUUUUCC-CGCAGCC----------
(((..(((...((..(((((((((((.((((((((...))))))))(((........)))..)))))).)))))..)).....)))...)))-.......---------- ( -23.90)
>DroWil_CAF1 87339 109 + 1
UGGCUUGGCUUAAAACUUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGCCUCCGUUUGCCUUUUC-CUCUGCCACUUCUUCUC
((((..((.............(((...((((((((...))))))))((((..(((.....)))..)))).)))(((........)))....)-)...))))......... ( -24.70)
>DroMoj_CAF1 55969 78 + 1
AUACACAGCUUAAAACUUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGCCA--------------------------------
.....................((.(((((((((((...))))))))((((..(((.....)))..))))..)))))..-------------------------------- ( -15.70)
>DroAna_CAF1 67831 100 + 1
AUACUUGGCUUAAAACUUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGUUUUCCUCCCAUUUUCCGCGCCUUC----------
......(((...........((((((.((((((((...))))))))(((........)))..))))))...((((...............)))))))...---------- ( -23.76)
>consensus
AGACUUGGCUUAAAACUUAAUGCAUGCGGAAAUGUGUGAUAUUUCCGUGCUCAAUUUCACAUUAUGCACUUGCGGCCUUCCUCCCAUUUUCC_CGC_GCC__________
.....................((.(((((((((((...))))))))((((..(((.....)))..))))..))))).................................. (-15.65 = -15.52 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,500,642 – 6,500,741
Length 99
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 77.29
Mean single sequence MFE -23.66
Consensus MFE -15.80
Energy contribution -15.80
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.67
SVM decision value 0.77
SVM RNA-class probability 0.845316
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6500642 99 - 20766785
----------GGCAGCG-GGAAAAUGGGAGGAAAGCCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUAAGUUUUAAGCCAAGUCU
----------(((.(((-(................)))).(((((((...(((........)))((((((.......))))))..))))))).........)))...... ( -24.89)
>DroVir_CAF1 48960 78 - 1
--------------------------------UGGCCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUAAGUUUUAGGCUGUAUAU
--------------------------------.((((((..((((.((((.....)))).))))((((((.......))))))))..((.....))....))))...... ( -19.80)
>DroEre_CAF1 70080 99 - 1
----------GGCUGCG-GGAAAAUGGGAGGAAAGCCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUACGUUUUAAGCCAAGUCC
----------((((...-..((((((...((....))(((.((((.((((.....)))).))))((((((.......))))))...)))....)))))).))))...... ( -26.70)
>DroWil_CAF1 87339 109 - 1
GAGAAGAAGUGGCAGAG-GAAAAGGCAAACGGAGGCCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUAAGUUUUAAGCCAAGCCA
.........((((..((-((...(((........)))(((.((((.((((.....)))).))))((((((.......))))))...)))......))))..))))..... ( -26.80)
>DroMoj_CAF1 55969 78 - 1
--------------------------------UGGCCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUAAGUUUUAAGCUGUGUAU
--------------------------------.....((..((((.((((.....)))).))))((((((.......))))))))((((((..(((.....))))))))) ( -18.80)
>DroAna_CAF1 67831 100 - 1
----------GAAGGCGCGGAAAAUGGGAGGAAAACCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUAAGUUUUAAGCCAAGUAU
----------...(((((((...............)))).(((((((...(((........)))((((((.......))))))..))))))).........)))...... ( -24.96)
>consensus
__________GGC_GCG_GGAAAAUGGGAGGAAAGCCGCAAGUGCAUAAUGUGAAAUUGAGCACGGAAAUAUCACACAUUUCCGCAUGCAUUAAGUUUUAAGCCAAGUAU
.....................................(((.((((.((((.....)))).))))((((((.......))))))...)))..................... (-15.80 = -15.80 +  -0.00)

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 10:11:50 2006