Locus 2426

Sequence ID 3R_DroMel_CAF1
Location 6,765,939 – 6,766,099
Length 160
Max. P 0.745124
window3957 window3958

overview

Window 7

Location 6,765,939 – 6,766,059
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -30.80
Consensus MFE -25.72
Energy contribution -26.40
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.51
Structure conservation index 0.84
SVM decision value 0.46
SVM RNA-class probability 0.745124
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6765939 120 - 27905053
AGCAUCCACAUGGCGUAUACUUAAUGUGCGAAAAUUUAAUUUAAUGGCUGUAUACCAUAUUUAUGCAAAAAUAGCUGCACGUAGCGAGUGUUGCCUGUGCUUCGCAGCGAAGAACGCCAA
..........((((((...(((....((((((.............((((((....(((....))).....))))))(((((((((....)))))..))))))))))...))).)))))). ( -30.70)
>DroSec_CAF1 30128 120 - 1
AGCAUCCACAUGGCGUAUACUUAAUGUGCGAAAAUUUAAUUUAAUGGCUGUAUAACAUAUUUAUGCAAAAAUAGCUGCACGUAGCGAGUGUUGCCUGUGCUUCGCAGCGAAGAACGCCAA
..........((((((...(((....((((((.............((((((....(((....))).....))))))(((((((((....)))))..))))))))))...))).)))))). ( -30.70)
>DroSim_CAF1 34640 120 - 1
AGCAUCCACAUGGCGUAUUCUUAAUGUGCGAAAAUUUAAUUUAAUGGAUGUAUAACAUAUUUAUGCAAAAAUACCUGCACGUAGCGAGUGUUGCCUGUGCUUCGCAGCGAAGAACGCCAA
..........((((((..((((....((((((................(((((((.....))))))).........(((((((((....)))))..))))))))))...)))))))))). ( -31.90)
>DroEre_CAF1 14919 120 - 1
AGCAUCCACAUGGCGUAUACUUAAUGUGCGAAAAUUUAAUUUAAUGGAUGUAUAACAUAUUUAUGCAAAAAUAGCUGCACGUAGCGAGUGUUGAAUGUGCUUCUCAGGGAAGAACGCCAA
..........((((((((((((.(((((((.............((((((((.....))))))))((.......)))))))))...))))))........((((.....)))).)))))). ( -27.00)
>DroYak_CAF1 27011 120 - 1
AGCAUCCACAUGGCGUAUACUUAAUGUGCGAAAAUUUAAUUUAAUAGCAGGGUAACAUAUUUAUGCAAAAAUAGCUGCACGUAGCGAGUGUUGCCUGUGCUUCGCAGGCAAGAGCGCCAA
..........((((((...(((..(.((((((.(((......))).((((((((((((...(((......)))((((....))))..))))))))).))))))))).).))).)))))). ( -33.70)
>consensus
AGCAUCCACAUGGCGUAUACUUAAUGUGCGAAAAUUUAAUUUAAUGGCUGUAUAACAUAUUUAUGCAAAAAUAGCUGCACGUAGCGAGUGUUGCCUGUGCUUCGCAGCGAAGAACGCCAA
..........((((((...(((....((((((................(((((((.....))))))).........(((((((((....)))))..))))))))))...))).)))))). (-25.72 = -26.40 +   0.68)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,765,979 – 6,766,099
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -27.61
Consensus MFE -22.26
Energy contribution -22.14
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -1.45
Structure conservation index 0.81
SVM decision value 0.05
SVM RNA-class probability 0.556958
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6765979 120 + 27905053
GUGCAGCUAUUUUUGCAUAAAUAUGGUAUACAGCCAUUAAAUUAAAUUUUCGCACAUUAAGUAUACGCCAUGUGGAUGCUAAGUCUGUAAGGCGGAAUCGUAUUUACCAGCAAGUGCAUU
((((.((.......))......(((((.....)))))..............))))..........((((.((..(((.....)))..)).)))).....((((((......))))))... ( -28.10)
>DroSec_CAF1 30168 120 + 1
GUGCAGCUAUUUUUGCAUAAAUAUGUUAUACAGCCAUUAAAUUAAAUUUUCGCACAUUAAGUAUACGCCAUGUGGAUGCUAAGUCUGCAAGGCAGAAACGUAUUUACCAACAAGUGCAUU
(((((((.......)).((((((((((.....((.................)).............(((.((..(((.....)))..)).)))...))))))))))........))))). ( -25.73)
>DroSim_CAF1 34680 120 + 1
GUGCAGGUAUUUUUGCAUAAAUAUGUUAUACAUCCAUUAAAUUAAAUUUUCGCACAUUAAGAAUACGCCAUGUGGAUGCUAAGUCUGCAAGGCAGAAACGUAUUUACCAGCAAGUGCAUU
(((((......(((((.((((((((((...(((((((...........(((.........)))........))))))).....(((((...)))))))))))))))...)))))))))). ( -26.61)
>DroEre_CAF1 14959 120 + 1
GUGCAGCUAUUUUUGCAUAAAUAUGUUAUACAUCCAUUAAAUUAAAUUUUCGCACAUUAAGUAUACGCCAUGUGGAUGCUAAGUCUGCAAGGCAGAAACGUGUAUUCCAGCAAGUGCAUU
((((((......)))))).................................((((...........(((.((..(((.....)))..)).))).......(((......))).))))... ( -24.90)
>DroYak_CAF1 27051 120 + 1
GUGCAGCUAUUUUUGCAUAAAUAUGUUACCCUGCUAUUAAAUUAAAUUUUCGCACAUUAAGUAUACGCCAUGUGGAUGCUAAGUGUGCAAGGCAGAAACGUGUUUUCCAGCAAGUGCAUU
(((((......(((((..(((((((((...(((((...(((......))).(((((((.(((((.(((...))).))))).)))))))..))))).)))))))))....)))))))))). ( -32.70)
>consensus
GUGCAGCUAUUUUUGCAUAAAUAUGUUAUACAGCCAUUAAAUUAAAUUUUCGCACAUUAAGUAUACGCCAUGUGGAUGCUAAGUCUGCAAGGCAGAAACGUAUUUACCAGCAAGUGCAUU
((((((......)))))).................................((((...........(((.(((((((.....))))))).)))......((........))..))))... (-22.26 = -22.14 +  -0.12)

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 10:35:44 2006