Locus 2302

Sequence ID 2L_DroMel_CAF1
Location 6,228,046 – 6,228,157
Length 111
Max. P 0.657698
window3696 window3697

overview

Window 6

Location 6,228,046 – 6,228,157
Length 111
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 93.74
Mean single sequence MFE -24.28
Consensus MFE -20.28
Energy contribution -20.00
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.38
Structure conservation index 0.84
SVM decision value 0.23
SVM RNA-class probability 0.644647
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6228046 111 + 22407834
----CCAGUUGAAAGCGCACGCAUGUAACGCCCAAAAACCAAACGAUGCAAUUUUCAAUGCAUAAUUCAUUUGCCAACAAAUUGAUUGGAAUGUUUAUGCGCUUUCGUAGCAUUU
----...((((((((((((.((.......)).......((((...(((((........)))))...(((((((....)))).)))))))........))))))))))..)).... ( -24.80)
>DroSec_CAF1 64571 110 + 1
----GCAGUUGAAAGCGCACGCAUGUAACGCCCAA-AACCAAACGAUGCAAUUUCCAAUGCAUAAUUCAUUUGCCAACAAAUUGAUUGGAAUGUUUAUGCGCUUUCGUAGCAUUU
----((...((((((((((.((((((.........-......)).))))...((((((((((.........)))(((....))))))))))......))))))))))..)).... ( -27.06)
>DroSim_CAF1 77754 110 + 1
----CCAGUUGAAAGCGCACGCAUGUAACGCCCAA-AACCAAACGAUGCAAUUUCCAAUGCAUAAUUCAUUUGCCAACAAAUUGAUUGGAAUGUUUAUGCGCUUUCGUAGCAUUU
----...((((((((((((.((((((.........-......)).))))...((((((((((.........)))(((....))))))))))......))))))))))..)).... ( -24.86)
>DroEre_CAF1 61603 109 + 1
----CCAGU-GAGAGUCCUCGCAUGUAACGCCCAA-AACCAAUCGAUGCAAUUUUCAAUGCAUAAUUCAUUUGCCAACAAAUUGAUUGGAAUGUUUAUGCGCUUUCGUAGCAUUU
----...((-(((....)))))((((.(((.....-..((((((((((((........))))).....(((((....))))))))))))...((....)).....))).)))).. ( -23.10)
>DroYak_CAF1 76163 113 + 1
CCGCCCAGU-GGAAACCGACGCAUGUAACGCCCAA-AACCAAACGAUGCAAUUUUCAAUGCAUAAUUCAUUUGCCAACAAAUUGAUUGGAAUGUUUAUGCGCUUUCGUAGCAUUU
((((...))-))........(((((.((((.((((-.........(((((........)))))...(((((((....)))).)))))))..)))))))))(((.....))).... ( -21.60)
>consensus
____CCAGUUGAAAGCGCACGCAUGUAACGCCCAA_AACCAAACGAUGCAAUUUUCAAUGCAUAAUUCAUUUGCCAACAAAUUGAUUGGAAUGUUUAUGCGCUUUCGUAGCAUUU
..........((((((....(((((.((((.((((..........(((((........)))))...(((((((....)))).)))))))..)))))))))))))))......... (-20.28 = -20.00 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 7

Location 6,228,046 – 6,228,157
Length 111
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 93.74
Mean single sequence MFE -29.84
Consensus MFE -23.14
Energy contribution -24.58
Covariance contribution 1.44
Combinations/Pair 1.03
Mean z-score -1.74
Structure conservation index 0.78
SVM decision value 0.26
SVM RNA-class probability 0.657698
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6228046 111 - 22407834
AAAUGCUACGAAAGCGCAUAAACAUUCCAAUCAAUUUGUUGGCAAAUGAAUUAUGCAUUGAAAAUUGCAUCGUUUGGUUUUUGGGCGUUACAUGCGUGCGCUUUCAACUGG----
.........((((((((((((((...(((((......)))))(((((((....((((.(....).)))))))))))))))....((((...))))))))))))))......---- ( -32.00)
>DroSec_CAF1 64571 110 - 1
AAAUGCUACGAAAGCGCAUAAACAUUCCAAUCAAUUUGUUGGCAAAUGAAUUAUGCAUUGGAAAUUGCAUCGUUUGGUU-UUGGGCGUUACAUGCGUGCGCUUUCAACUGC----
.........((((((((((((((...(((((......)))))(((((((....((((.(....).))))))))))))))-)...((((...))))))))))))))......---- ( -32.00)
>DroSim_CAF1 77754 110 - 1
AAAUGCUACGAAAGCGCAUAAACAUUCCAAUCAAUUUGUUGGCAAAUGAAUUAUGCAUUGGAAAUUGCAUCGUUUGGUU-UUGGGCGUUACAUGCGUGCGCUUUCAACUGG----
.........((((((((((((((...(((((......)))))(((((((....((((.(....).))))))))))))))-)...((((...))))))))))))))......---- ( -32.00)
>DroEre_CAF1 61603 109 - 1
AAAUGCUACGAAAGCGCAUAAACAUUCCAAUCAAUUUGUUGGCAAAUGAAUUAUGCAUUGAAAAUUGCAUCGAUUGGUU-UUGGGCGUUACAUGCGAGGACUCUC-ACUGG----
....((......(((((.....((..((((((((((..((....))..))))(((((.(....).))))).))))))..-.)).)))))....))(((....)))-.....---- ( -25.70)
>DroYak_CAF1 76163 113 - 1
AAAUGCUACGAAAGCGCAUAAACAUUCCAAUCAAUUUGUUGGCAAAUGAAUUAUGCAUUGAAAAUUGCAUCGUUUGGUU-UUGGGCGUUACAUGCGUCGGUUUCC-ACUGGGCGG
..((((..(....).((((((.(((((((((......)))))..))))..))))))..........))))((((..((.-.(.(((((.....))))).).....-))..)))). ( -27.50)
>consensus
AAAUGCUACGAAAGCGCAUAAACAUUCCAAUCAAUUUGUUGGCAAAUGAAUUAUGCAUUGAAAAUUGCAUCGUUUGGUU_UUGGGCGUUACAUGCGUGCGCUUUCAACUGG____
.........((((((((((.......((((((((....))))(((((((....((((.(....).)))))))))))....))))((((...)))))))))))))).......... (-23.14 = -24.58 +   1.44)

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 10:24:30 2006