Locus 4627

Sequence ID 2L_DroMel_CAF1
Location 13,224,732 – 13,224,850
Length 118
Max. P 0.866904
window7306 window7307

overview

Window 6

Location 13,224,732 – 13,224,850
Length 118
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.74
Mean single sequence MFE -43.46
Consensus MFE -21.94
Energy contribution -22.58
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -1.82
Structure conservation index 0.50
SVM decision value -0.02
SVM RNA-class probability 0.522667
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13224732 118 + 22407834
CUGGCGCCAUUCCAGUGGCCAGGUGUUGGCAUCCGGAUUGAUGUUGAGCAGUUGACGCAUCUGGAGCACGGCACGUUGCUUUUGUAGCAUGUAAGCGUAUGCCUGGUGAUUGAAGACC
............((((.(((((((((((((.(((((((.(.(((..(....)..))))))))))))).))))((((((((.....)))).....))))..))))))).))))...... ( -41.00)
>DroVir_CAF1 1039 118 + 1
AUUGCGCAACUCCGCUGGCCAGGUGUUGGCAUCCGGAUUGAUGCUGAGCAUGUGGCGUAUUUGGAGUACCGCGCGUUGCUUUUGCAGCACAUAGGCGAACGCCUGAUGAUUCAUUAUC
...((((.((((((...((((.(((((((((((......)))))).))))).)))).....))))))...))))(((((....))))).(((((((....)))).))).......... ( -48.90)
>DroGri_CAF1 1404 118 + 1
GUUGCGCAGUUCCGCUGGCCAGGUGUUGGCAUCCGGAUUGAUGCUCAGCAACUGGCGCAUUUGAAGCACGGCGCGCUGCUUCUGUAACACAUAGGCGAAUGCCUGAUGAUUGAUUACU
((((((((((..((((((((((.((((((((((......))))).))))).)))))((.......)).))))).)))))....))))).(((((((....)))).))).......... ( -48.90)
>DroWil_CAF1 1285 115 + 1
UUGACGCCAUUCCAAUGGCCAAGUAUUUGCAUCCGGAUUGAUGCUGAGCAAUUGGCGCAUUUGAAGGACAGCUCUUUGCUUUUGUAGCAUCAAUGAGUAGGCUUGAUGAUUAAUA---
.....(((((....)))))(((((...(((.((...(((((((((((((((..(((..............)))..))))))....)))))))))))))).)))))..........--- ( -32.04)
>DroMoj_CAF1 1124 118 + 1
AUUGCGCAAAUGUGCUGGCCAGGUAUUUGCAUCCGGGUUGAUGCUGAGCAAUUGGCGCAUCUGGAGCACGGUGCGUUGCUUUUGCAGCAUGUAGGCGAAUGCCUGAUGAUUGAUGCUU
...((((....))))....(((((((((((.(((((((.(.(((..(....)..)))))))))))((.....))(((((....)))))......)))))))))))............. ( -45.40)
>DroAna_CAF1 2054 118 + 1
CUGGCGCCAUUCCACGGGCCAGGUGUUGGCAUCAGGAUUGAUGGCGAGGAGUUGGCGCAUCUGGAGCACAGCCCGUUGCUUCUGCAGCAUAUAGGCGUAGGCCUGAUGGCUAAAAACC
(((((.((.......)))))))...(((((((((((....(((.(..((.((((((.(.....).)).))))))(((((....))))).....).)))...)))))).)))))..... ( -44.50)
>consensus
AUGGCGCAAUUCCACUGGCCAGGUGUUGGCAUCCGGAUUGAUGCUGAGCAAUUGGCGCAUCUGGAGCACGGCGCGUUGCUUUUGCAGCAUAUAGGCGAAUGCCUGAUGAUUGAUAACC
.....((..........(((((...((((((((......))))))))....)))))(((...((((((........))))))))).))...(((((....)))))............. (-21.94 = -22.58 +   0.64)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 13,224,732 – 13,224,850
Length 118
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.74
Mean single sequence MFE -36.07
Consensus MFE -20.81
Energy contribution -21.90
Covariance contribution 1.09
Combinations/Pair 1.35
Mean z-score -1.98
Structure conservation index 0.58
SVM decision value 0.85
SVM RNA-class probability 0.866904
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13224732 118 - 22407834
GGUCUUCAAUCACCAGGCAUACGCUUACAUGCUACAAAAGCAACGUGCCGUGCUCCAGAUGCGUCAACUGCUCAACAUCAAUCCGGAUGCCAACACCUGGCCACUGGAAUGGCGCCAG
(((........))).(((...........((((.....))))....(((((..(((((.((.((((..((.....((((......))))....))..))))))))))))))))))).. ( -32.70)
>DroVir_CAF1 1039 118 - 1
GAUAAUGAAUCAUCAGGCGUUCGCCUAUGUGCUGCAAAAGCAACGCGCGGUACUCCAAAUACGCCACAUGCUCAGCAUCAAUCCGGAUGCCAACACCUGGCCAGCGGAGUUGCGCAAU
..........(((.((((....)))))))((((.....))))..(((((..(((((......((((..((....(((((......)))))...))..))))....))))))))))... ( -36.80)
>DroGri_CAF1 1404 118 - 1
AGUAAUCAAUCAUCAGGCAUUCGCCUAUGUGUUACAGAAGCAGCGCGCCGUGCUUCAAAUGCGCCAGUUGCUGAGCAUCAAUCCGGAUGCCAACACCUGGCCAGCGGAACUGCGCAAC
.(((((....(((.((((....))))))).))))).......((((.((((((.......))(((((.((.((.(((((......))))))).)).)))))..))))....))))... ( -42.50)
>DroWil_CAF1 1285 115 - 1
---UAUUAAUCAUCAAGCCUACUCAUUGAUGCUACAAAAGCAAAGAGCUGUCCUUCAAAUGCGCCAAUUGCUCAGCAUCAAUCCGGAUGCAAAUACUUGGCCAUUGGAAUGGCGUCAA
---......................(((((((((....(((.....)))....(((.((((.(((((.......(((((......)))))......))))))))).)))))))))))) ( -28.82)
>DroMoj_CAF1 1124 118 - 1
AAGCAUCAAUCAUCAGGCAUUCGCCUACAUGCUGCAAAAGCAACGCACCGUGCUCCAGAUGCGCCAAUUGCUCAGCAUCAACCCGGAUGCAAAUACCUGGCCAGCACAUUUGCGCAAU
..((..........((((....))))...((((.....))))..(((..(((((((((.((.((.....)).))(((((......)))))......))))..)))))...)))))... ( -35.00)
>DroAna_CAF1 2054 118 - 1
GGUUUUUAGCCAUCAGGCCUACGCCUAUAUGCUGCAGAAGCAACGGGCUGUGCUCCAGAUGCGCCAACUCCUCGCCAUCAAUCCUGAUGCCAACACCUGGCCCGUGGAAUGGCGCCAG
((....(((((...((((....))))...((((.....))))...)))))....))....((((((..(((.((..((((....))))((((.....)))).)).))).))))))... ( -40.60)
>consensus
GGUAAUCAAUCAUCAGGCAUACGCCUAUAUGCUACAAAAGCAACGCGCCGUGCUCCAAAUGCGCCAAUUGCUCAGCAUCAAUCCGGAUGCCAACACCUGGCCAGCGGAAUGGCGCAAG
..............((((....))))...((((.....))))..(((((((..(((...((.((((..((....(((((......)))))...))..))))))..))))))))))... (-20.81 = -21.90 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:58 2006