Locus 7341

Sequence ID 3R_DroMel_CAF1
Location 19,420,168 – 19,420,326
Length 158
Max. P 0.952981
window11871 window11872

overview

Window 1

Location 19,420,168 – 19,420,286
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.21
Mean single sequence MFE -39.89
Consensus MFE -28.82
Energy contribution -28.02
Covariance contribution -0.80
Combinations/Pair 1.44
Mean z-score -2.72
Structure conservation index 0.72
SVM decision value 1.43
SVM RNA-class probability 0.952981
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19420168 118 - 27905053
UACAACUGGGGCAAGAAGGCAGCUUCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCUGGCUGCCUUUUUGCUACCCAGAUGGUCAACCACUACACGUUGCUUAUUAAGUAGGGUUAC--U
..((.(((((((((((((((((((..(..((((((((...))))))))..)......))))))))))))))..))))).))((.((((.((((..............))))))))))--. ( -46.34)
>DroSim_CAF1 28220 118 - 1
UACAAGUGGGGCAAGAAGGCAGCUGCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCUGGCUGCCUUUUUGCCACCCAGAUGGUCAACCACUACUCGUUGCUUAUUAAGUAGGUUUAC--U
....((((((((((((((((((((((.((((((((((...)))))))))))).....)))))))))))))))(((.....)))...)))))....((.((((((...))))))..))--. ( -45.90)
>DroEre_CAF1 20323 117 - 1
UACAAAUGGGGCAAGAAGGCGGCUGCUGGAAUUGCAGUUCUCGUGGUUUUGCUAUCCGGCUGUCUUUUUGCUACCCAGAUGGUCAACCACUACUCGAUGCUUAUUAAGUAAGA-UAC--U
......((((((((((((((((((...(((...((((..(.....)..))))..)))))))))))))))))..))))..(((....))).((((..((....))..))))...-...--. ( -37.00)
>DroYak_CAF1 28219 118 - 1
UACAAAUGGGGCAAGAAGGCGGCUGCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCCGGCUGCCUUUUUGCCACCCAGAUGGUCAACCACUACUCGCUGCUUAUUAAGUAAGGUUAC--U
.......((((((((((((((((((.(..((((((((...))))))))..).....)))))))))))))))).)).((.(((....))))).((..((........))..)).....--. ( -42.40)
>DroAna_CAF1 31718 117 - 1
UACAAAUGGGGCAAAAAGGCUGCUGCUGGAAUAGUGGUAUUAAUAGUGUUGCUCUCUGGCUGCCUUUUUGCCACACAAAUGGUCAACAAAUAUUCAAUACUGUUUAAGUAUGU-UUC--U
..((..((.(((((((((((....((..((..(((..(((.....)))..))).))..)).)))))))))))...))..))...............(((((.....)))))..-...--. ( -34.50)
>DroPer_CAF1 29777 120 - 1
UAUAAAUGGGGCAAAAAGGCAGCUGCUGGCAUUGUAGUGCUGUUGCUUCUAGUCACGACCUGCCUCUUUGUCACGAUGAUGGUCAACAAUGAAUCAGUGCUCACGAAGUAGGUCCACAAU
.......(((((((...((((.((((.......)))))))).))))))).......(((((((.((..((.((((((..((.....))....))).)))..)).)).)))))))...... ( -33.20)
>consensus
UACAAAUGGGGCAAGAAGGCAGCUGCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCUGGCUGCCUUUUUGCCACCCAGAUGGUCAACCACUACUCGAUGCUUAUUAAGUAGGUUUAC__U
..((..((((((((((((((((((((((......))))....((((.....))))..)))))))))))))))..)))..))................((((.....)))).......... (-28.82 = -28.02 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,420,206 – 19,420,326
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.11
Mean single sequence MFE -37.95
Consensus MFE -27.47
Energy contribution -26.28
Covariance contribution -1.19
Combinations/Pair 1.52
Mean z-score -2.14
Structure conservation index 0.72
SVM decision value 0.89
SVM RNA-class probability 0.874698
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19420206 120 - 27905053
GCAGCUAUUUAUCAUCUCCCCGAUCCUCUUGAUGGCUCUGUACAACUGGGGCAAGAAGGCAGCUUCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCUGGCUGCCUUUUUGCUACCCAGAU
..(((((((....(((.....)))......)))))))........(((((((((((((((((((..(..((((((((...))))))))..)......))))))))))))))..))))).. ( -44.10)
>DroSim_CAF1 28258 120 - 1
GCAGCUAUUUAUCAUCUCCCCGAUCCUCCUGAUCGCUCUGUACAAGUGGGGCAAGAAGGCAGCUGCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCUGGCUGCCUUUUUGCCACCCAGAU
....................(((((.....))))).((((.......(((((((((((((((((((.((((((((((...)))))))))))).....))))))))))))))).)))))). ( -42.71)
>DroEre_CAF1 20360 120 - 1
GCAGCUCUUUAUCAUCUCUCCAAUCCUCCUGAUCGCUCUUUACAAAUGGGGCAAGAAGGCGGCUGCUGGAAUUGCAGUUCUCGUGGUUUUGCUAUCCGGCUGUCUUUUUGCUACCCAGAU
..............................................((((((((((((((((((...(((...((((..(.....)..))))..)))))))))))))))))..))))... ( -32.80)
>DroYak_CAF1 28257 120 - 1
GCAGCUAUUCAUCAUCUCUCCAAUCCUCCUGAUGGCUCUUUACAAAUGGGGCAAGAAGGCGGCUGCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCCGGCUGCCUUUUUGCCACCCAGAU
..(((((((.....................)))))))..........((((((((((((((((((.(..((((((((...))))))))..).....)))))))))))))))).))..... ( -40.00)
>DroAna_CAF1 31755 120 - 1
GCAGUUGUACUUCAUCUCACCUUUUCUCCUGAUAGCCAUUUACAAAUGGGGCAAAAAGGCUGCUGCUGGAAUAGUGGUAUUAAUAGUGUUGCUCUCUGGCUGCCUUUUUGCCACACAAAU
....((((...........................(((((....)))))(((((((((((....((..((..(((..(((.....)))..))).))..)).)))))))))))..)))).. ( -35.70)
>DroPer_CAF1 29817 120 - 1
GCAACUAUACAUAAUCUCUCCGCUUCUGCUGAUUGCUCUGUAUAAAUGGGGCAAAAAGGCAGCUGCUGGCAUUGUAGUGCUGUUGCUUCUAGUCACGACCUGCCUCUUUGUCACGAUGAU
(((((..((((((((....((((..(((((..(((((((((....)))))))))...)))))..)).)).))))).)))..))))).((..((.((((.........)))).))...)). ( -32.40)
>consensus
GCAGCUAUUCAUCAUCUCUCCGAUCCUCCUGAUCGCUCUGUACAAAUGGGGCAAGAAGGCAGCUGCUGGAAUCGCAGUACUUGUGGUUUUGCUAUCUGGCUGCCUUUUUGCCACCCAGAU
.................................................(((((((((((((((((((......))))....((((.....))))..)))))))))))))))........ (-27.47 = -26.28 +  -1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:33 2006