Locus 1696

Sequence ID 3R_DroMel_CAF1
Location 4,865,882 – 4,865,977
Length 95
Max. P 0.828446
window2794 window2795

overview

Window 4

Location 4,865,882 – 4,865,977
Length 95
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.72
Mean single sequence MFE -32.82
Consensus MFE -23.40
Energy contribution -23.07
Covariance contribution -0.33
Combinations/Pair 1.18
Mean z-score -2.13
Structure conservation index 0.71
SVM decision value 0.71
SVM RNA-class probability 0.828446
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4865882 95 + 27905053
C-----------GAUUAGAUCCGGUAAGAAGGGCGCUCCACGUGAGUACUACACGCUGGAGUGCCUGCUGUACCUGCUCAAGAAUGUGAUGCUGCAACACUCGGUC
.-----------.....((((.((((....((((((((((((((.......)))).))))))))))....)))).(((((......))).))..........)))) ( -34.00)
>DroVir_CAF1 55610 106 + 1
CGUAAUUUGUUUUUGCAGCUCUGGUAAAAAGGGCGCUCCACGUGAAUAUUAUACGCUGGAGUGCCUGCUGUACUUGCUCAAGAAUGUUAUGCUCCAGCAUUCGGUG
((((((..(((((((.(((...((((....((((((((((((((.......)))).))))))))))....)))).))))))))))))))))............... ( -36.90)
>DroPse_CAF1 54764 94 + 1
------------UUGCAGUUCGGGCAAGAAGGGCGCUCCACGUGAAUACUACACGUUGGAGUGCCUACUGUAUUUGCUGAAAAAUGUUAUGCUCCAGCACUCGGUG
------------.((((((((......)).((((((((((((((.......)))).))))))))))))))))..(((((...............)))))....... ( -32.96)
>DroWil_CAF1 60155 94 + 1
------------UUUCAGAUCCGGAAAAAAGGGUGCUCCGCGUGAAUACUAUACGCUGGAGUGCCUCUUGUAUCUAUUAAAAAAUGUGAUGCUCCAGCACUCGGUG
------------........((((....(((((..(((((((((.......))))).))))..)).)))(((((((((....)))).)))))........)))).. ( -28.60)
>DroAna_CAF1 47483 95 + 1
C-----------UUUCAGAUCCGGCAAGAAGGGCGCUCCACGUGAAUAUUACACGCUGGAGUGCCUGCUGUACCUGCUCAAGAAUGUUAUGCUUCAGCACUCCGUG
.-----------.........(((......((((((((((((((.......)))).))))))))))((((.....((.............))..))))...))).. ( -31.52)
>DroPer_CAF1 55403 94 + 1
------------UUGCAGUUCGGGAAAGAAGGGCGCUCCACGUGAAUACUACACGUUGGAGUGCCUACUGUAUUUGCUGAAAAAUGUUAUGCUCCAGCACUCGGUG
------------.((((((((......)).((((((((((((((.......)))).))))))))))))))))..(((((...............)))))....... ( -32.96)
>consensus
____________UUGCAGAUCCGGAAAGAAGGGCGCUCCACGUGAAUACUACACGCUGGAGUGCCUGCUGUACCUGCUCAAAAAUGUUAUGCUCCAGCACUCGGUG
..............................((((((((((((((.......)))).)))))))))).......................(((....)))....... (-23.40 = -23.07 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,865,882 – 4,865,977
Length 95
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 81.72
Mean single sequence MFE -27.47
Consensus MFE -19.79
Energy contribution -19.65
Covariance contribution -0.14
Combinations/Pair 1.25
Mean z-score -1.32
Structure conservation index 0.72
SVM decision value 0.03
SVM RNA-class probability 0.549443
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4865882 95 - 27905053
GACCGAGUGUUGCAGCAUCACAUUCUUGAGCAGGUACAGCAGGCACUCCAGCGUGUAGUACUCACGUGGAGCGCCCUUCUUACCGGAUCUAAUC-----------G
((((((((((.........)))))).......((((.((..(((.(((((.((((.......))))))))).)))...)))))))).)).....-----------. ( -29.90)
>DroVir_CAF1 55610 106 - 1
CACCGAAUGCUGGAGCAUAACAUUCUUGAGCAAGUACAGCAGGCACUCCAGCGUAUAAUAUUCACGUGGAGCGCCCUUUUUACCAGAGCUGCAAAAACAAAUUACG
.......((((.(((.(......)))).))))....((((.(((.(((((.(((.........)))))))).)))((.......)).))))............... ( -24.70)
>DroPse_CAF1 54764 94 - 1
CACCGAGUGCUGGAGCAUAACAUUUUUCAGCAAAUACAGUAGGCACUCCAACGUGUAGUAUUCACGUGGAGCGCCCUUCUUGCCCGAACUGCAA------------
.......((((((((.........))))))))....((((.(((.(((((.((((.......))))))))).)))..((......))))))...------------ ( -28.20)
>DroWil_CAF1 60155 94 - 1
CACCGAGUGCUGGAGCAUCACAUUUUUUAAUAGAUACAAGAGGCACUCCAGCGUAUAGUAUUCACGCGGAGCACCCUUUUUUCCGGAUCUGAAA------------
..(((.((((....))))..............((...((((((..((((.((((.........))))))))...)))))).)))))........------------ ( -21.20)
>DroAna_CAF1 47483 95 - 1
CACGGAGUGCUGAAGCAUAACAUUCUUGAGCAGGUACAGCAGGCACUCCAGCGUGUAAUAUUCACGUGGAGCGCCCUUCUUGCCGGAUCUGAAA-----------G
..((((.((((.(((.(......)))).))))((((.((..(((.(((((.((((.......))))))))).)))...))))))...))))...-----------. ( -32.60)
>DroPer_CAF1 55403 94 - 1
CACCGAGUGCUGGAGCAUAACAUUUUUCAGCAAAUACAGUAGGCACUCCAACGUGUAGUAUUCACGUGGAGCGCCCUUCUUUCCCGAACUGCAA------------
.......((((((((.........))))))))....((((.(((.(((((.((((.......))))))))).)))..((......))))))...------------ ( -28.20)
>consensus
CACCGAGUGCUGGAGCAUAACAUUCUUGAGCAAAUACAGCAGGCACUCCAGCGUGUAGUAUUCACGUGGAGCGCCCUUCUUACCGGAUCUGAAA____________
......((((....)))).......................(((.((((.(((((.......))))))))).)))............................... (-19.79 = -19.65 +  -0.14)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:06 2006