Locus 7865

Sequence ID 3R_DroMel_CAF1
Location 21,046,865 – 21,047,011
Length 146
Max. P 0.878430
window12669 window12670

overview

Window 9

Location 21,046,865 – 21,046,985
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.61
Mean single sequence MFE -29.60
Consensus MFE -19.89
Energy contribution -19.20
Covariance contribution -0.69
Combinations/Pair 1.46
Mean z-score -1.54
Structure conservation index 0.67
SVM decision value 0.73
SVM RNA-class probability 0.836228
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21046865 120 - 27905053
AUUAACGUGCACGUAAACAUAGCAAAAGUGGUGUUGCAAUAAGGCUGCAGCAUAACUCCCAUCAAGUUUGUAGCUGCAAUGAUCCCAAGUCUUCCCAGUGACAUGCAGAAGCUAACUGCC
....(((....))).......((...(((.((((((((.......)))))))).))).......((((.((..(((((.((....)).(((........))).)))))..)).)))))). ( -27.80)
>DroPse_CAF1 2707 120 - 1
AAGAGAACCAAAGUGCAAAUAGCAAAAGUUAUAUUACAGUAUGGCUGUAAUGUAAGUCCCAUUAAGUUUGUAGCUGCGAUGAUUCCAAGUCGUCCUAACGACAUGCAAAAGCUAACAGCU
..............((...((((.....(((((((((((.....)))))))))))...........((((((..((.((....)))).(((((....))))).)))))).))))...)). ( -26.90)
>DroEre_CAF1 4555 120 - 1
AUUAGAGUGCACGUAAAUAUGGCAAAAGUUGUGUUGCAAUAAGGUUGCAGCAUAACACCCAUUAAGUUCGUAGAUGCAAUGAUCCCAAGUCUUCCCAGAGACAUGCAGAAGCUAACUGCC
....................(((....(((((((((((((...)))))))))))))........((((.((...((((.((....)).(((((....))))).))))...)).))))))) ( -31.60)
>DroWil_CAF1 4889 120 - 1
AAUAAUAUAAUGGUAAACAUGGCAAAUGUUGUAUUACACAAUGGCUGUAACAUUAUACCCAUCAGAUUGGUGGCAGCUAUAAUGCCAAGUCGUCCAAGUGACAUGCAAAUGCUAACUGCU
...........((((....(((((....((((((..(((.((((((....(((((((.(((((.....)))))....)))))))...))))))....)))..)))))).)))))..)))) ( -26.00)
>DroYak_CAF1 4730 120 - 1
AUUAGAGUGCAUGUAAACAUGGCAAAUGUUGUGUUGCAGUAAGGUUGCAGCAUAACCCCCAUUAAGUUCGUCGCUGCAAUGAUCCCAAGUCUUCCCAGCGACAUGCAGAAGCUAACUGCC
.((((..(((((......((((.....((((((((((((.....))))))))))))..)))).......(((((((....(((.....)))....))))))))))))....))))..... ( -36.40)
>DroPer_CAF1 3312 120 - 1
AAGAGAACAAAAGUACAAAUAGCAAAAGUUAUAUUACAGUAUGGCUGUAAUGUAAGUCCCAUUAAGUUGGUAGCUGCGAUGAUUCCAAGUCGUCCUAAGGACAUGCAAAAGCUAACAGCU
....................(((.....(((((((((((.....)))))))))))..........((((((...((((((........)))((((...))))..)))...)))))).))) ( -28.90)
>consensus
AAUAGAAUGAAAGUAAACAUAGCAAAAGUUGUAUUACAGUAAGGCUGCAACAUAACUCCCAUUAAGUUCGUAGCUGCAAUGAUCCCAAGUCGUCCCAGCGACAUGCAAAAGCUAACUGCC
....................(((....((((((((((((.....))))))))))))..............((((((((.((....)).(((........))).)))...)))))...))) (-19.89 = -19.20 +  -0.69)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,046,905 – 21,047,011
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 76.48
Mean single sequence MFE -22.47
Consensus MFE -14.76
Energy contribution -14.18
Covariance contribution -0.58
Combinations/Pair 1.41
Mean z-score -1.60
Structure conservation index 0.66
SVM decision value 0.90
SVM RNA-class probability 0.878430
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21046905 106 - 27905053
CAUUGGUAGAAUUACAAUACUUACCAAUUAACGUGCACGUAAACAUAGCAAAAGUGGUGUUGCAAUAAGGCUGCAGCAUAACUCCCAUCAAGUUUGUAGCUGCAAU
.....((((...(((((.((((........(((....)))............(((.((((((((.......)))))))).)))......))))))))).))))... ( -22.40)
>DroPse_CAF1 2747 100 - 1
CAUUA-UUAAAUA-----AAUUACCAAAGAGAACCAAAGUGCAAAUAGCAAAAGUUAUAUUACAGUAUGGCUGUAAUGUAAGUCCCAUUAAGUUUGUAGCUGCGAU
.....-....(((-----((((.................(((.....)))....(((((((((((.....))))))))))).........)))))))......... ( -15.90)
>DroSim_CAF1 4726 101 - 1
CAUUGGUCGAAUU-----ACUUACCAAUUAGCGUGCACGUAAACAUGGCAAAAGUGGUGUUGCAAUAAGGCUGCAGCAUAACUCCCAUCAAGUUCGUAGCUGCAAU
.((((((......-----....))))))..(((.(((((.....((((....(((.((((((((.......)))))))).))).))))......))).)))))... ( -25.10)
>DroEre_CAF1 4595 101 - 1
AAGUACUUCAAUU-----ACUUACCAAUUAGAGUGCACGUAAAUAUGGCAAAAGUUGUGUUGCAAUAAGGUUGCAGCAUAACACCCAUUAAGUUCGUAGAUGCAAU
..(((((..((((-----.......))))..)))))(((.....((((.....(((((((((((((...)))))))))))))..))))......)))......... ( -26.90)
>DroYak_CAF1 4770 101 - 1
AAGAACUUGAAAA-----ACUUACCAAUUAGAGUGCAUGUAAACAUGGCAAAUGUUGUGUUGCAGUAAGGUUGCAGCAUAACCCCCAUUAAGUUCGUCGCUGCAAU
..((((((((...-----...............((((((....))).)))...((((((((((((.....)))))))))))).....))))))))........... ( -27.00)
>DroPer_CAF1 3352 100 - 1
CAUUA-UUAAAUA-----AAUUACCAAAGAGAACAAAAGUACAAAUAGCAAAAGUUAUAUUACAGUAUGGCUGUAAUGUAAGUCCCAUUAAGUUGGUAGCUGCGAU
.....-.......-----...........................((((.....(((((((((((.....)))))))))))...(((......)))..)))).... ( -17.50)
>consensus
CAUUA_UUGAAUA_____ACUUACCAAUUAGAGUGCACGUAAACAUAGCAAAAGUUGUGUUGCAAUAAGGCUGCAGCAUAACUCCCAUUAAGUUCGUAGCUGCAAU
...............................................((....((((((((((((.....))))))))))))........(((.....)))))... (-14.76 = -14.18 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:39 2006