Locus 4524

Sequence ID 2L_DroMel_CAF1
Location 12,964,763 – 12,964,881
Length 118
Max. P 0.996915
window7117 window7118

overview

Window 7

Location 12,964,763 – 12,964,881
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.53
Mean single sequence MFE -31.12
Consensus MFE -30.19
Energy contribution -30.64
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.28
Structure conservation index 0.97
SVM decision value 1.79
SVM RNA-class probability 0.977359
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12964763 118 + 22407834
GUGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCAACUACUGAACUUUGUGUGAAUGCGAAAGCAGCCGG--GG
(((((((....)))..((((((((.((((............((((((.((.......)))).))))..))))))))))))..))))....(((((.((...(((....))))))))--)) ( -32.24)
>DroPse_CAF1 44254 118 + 1
GGGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCGACUACUGAACUUUGUGUGAAUGUGAAAGCAGCCGU--GG
.............((((((......(((.(((((.((..(.((.....)).)..)).)))))((((((.....)))))).)))..................(((....))))))))--). ( -28.50)
>DroSec_CAF1 9549 118 + 1
GUGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCAACUACUGAACUUUGUGUGAAUGCGAAAGCAGCCGG--GA
...((((.....((((((((((((.((((............((((((.((.......)))).))))..))))))))))))..(....)......))))....((....))))))..--.. ( -31.74)
>DroSim_CAF1 10377 120 + 1
GUGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCAACUACUGAACUUUGUGUGAAUGCGAAAGCAGCCGGGGGG
(((((((....)))..((((((((.((((............((((((.((.......)))).))))..))))))))))))..))))....(((((.((...(((....)))))))))).. ( -33.54)
>DroYak_CAF1 11104 118 + 1
GUGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCAACUACUGAACUUUGUGUGAAUGCGAAAGCAGCCGG--GG
(((((((....)))..((((((((.((((............((((((.((.......)))).))))..))))))))))))..))))....(((((.((...(((....))))))))--)) ( -32.24)
>DroPer_CAF1 42600 118 + 1
GGGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCAACUACUGAACUUUGUGUGAAUGUGAAAGCAGCCGU--GG
...((((.....((((((((((((.((((............((((((.((.......)))).))))..))))))))))))..(....)......))))....((....))))))..--.. ( -28.44)
>consensus
GUGGGUUAAAAAACACGGCCAAAAUGUCAAUGCAAAUUUAAUGGCUGACAAUUUAUAUGCAUGCCAAGUGACUUUUGGCCAACUACUGAACUUUGUGUGAAUGCGAAAGCAGCCGG__GG
...((((.....((((((((((((.((((............((((((.((.......)))).))))..))))))))))))..(....)......))))....((....))))))...... (-30.19 = -30.64 +   0.45)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 12,964,763 – 12,964,881
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.53
Mean single sequence MFE -27.37
Consensus MFE -26.87
Energy contribution -26.51
Covariance contribution -0.36
Combinations/Pair 1.07
Mean z-score -1.56
Structure conservation index 0.98
SVM decision value 2.77
SVM RNA-class probability 0.996915
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12964763 118 - 22407834
CC--CCGGCUGCUUUCGCAUUCACACAAAGUUCAGUAGUUGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCAC
..--..(((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).))))))))................ ( -26.14)
>DroPse_CAF1 44254 118 - 1
CC--ACGGCUGCUUUCACAUUCACACAAAGUUCAGUAGUCGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCCC
.(--(((((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).)))))))))))............. ( -31.24)
>DroSec_CAF1 9549 118 - 1
UC--CCGGCUGCUUUCGCAUUCACACAAAGUUCAGUAGUUGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCAC
..--..(((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).))))))))................ ( -26.14)
>DroSim_CAF1 10377 120 - 1
CCCCCCGGCUGCUUUCGCAUUCACACAAAGUUCAGUAGUUGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCAC
......(((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).))))))))................ ( -26.14)
>DroYak_CAF1 11104 118 - 1
CC--CCGGCUGCUUUCGCAUUCACACAAAGUUCAGUAGUUGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCAC
..--..(((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).))))))))................ ( -26.14)
>DroPer_CAF1 42600 118 - 1
CC--ACGGCUGCUUUCACAUUCACACAAAGUUCAGUAGUUGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCCC
.(--(((((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).)))))))))))............. ( -28.44)
>consensus
CC__CCGGCUGCUUUCGCAUUCACACAAAGUUCAGUAGUUGGCCAAAAGUCACUUGGCAUGCAUAUAAAUUGUCAGCCAUUAAAUUUGCAUUGACAUUUUGGCCGUGUUUUUUAACCCAC
......(((((((...((...........))..)))))))((((((((((((..((((..(((.......)))..))))............)))).))))))))................ (-26.87 = -26.51 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:57 2006