Locus 8422

Sequence ID X_DroMel_CAF1
Location 20,904,941 – 20,905,031
Length 90
Max. P 0.775283
window13838 window13839

overview

Window 8

Location 20,904,941 – 20,905,031
Length 90
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 78.51
Mean single sequence MFE -33.35
Consensus MFE -19.44
Energy contribution -20.12
Covariance contribution 0.67
Combinations/Pair 1.22
Mean z-score -1.85
Structure conservation index 0.58
SVM decision value 0.54
SVM RNA-class probability 0.775283
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20904941 90 + 22224390
CGCGCC---------G---CAGCAGCAUCAGCAAGCCGGUGUAAUCAACACGAUCUCUGGCAGCAUUCCGGCCACGGGAUUUAGUUCCCUGGCCGGCAGCUU
.(((((---------(---(....((....))..(((((.(..(((.....)))).))))).)).....(((((.((((......)))))))))))).)).. ( -37.10)
>DroSec_CAF1 24128 90 + 1
CGCGCC---------G---CAGCAGCAUCAGCAAGCUGGCCUAAUCAGCACGAUCUCUGGCAGCAUUCCGGCCACGGGAUUUAGUUCCCUGGCCGGCAGCUU
.(((((---------(---(..((((........))))(((..(((.....)))....))).)).....(((((.((((......)))))))))))).)).. ( -37.20)
>DroSim_CAF1 26020 90 + 1
CGCGCC---------G---CAGCAGCAUCAGCAAGCUGGCCUAAUCAACACGAUCUCUGGCAGCAUUCCGGCCACGGGAUUUAGUUCCCUGGCCGGCAGCUU
.(((((---------(---(..((((........))))(((..(((.....)))....))).)).....(((((.((((......)))))))))))).)).. ( -37.20)
>DroYak_CAF1 21370 93 + 1
CGCGCC---------GCAGCAGCAGCAUCAGCAAACUGGCCUGAUCAACACGAUCUCCGGCAGCAUUCCGGCCACGGGAUUCAGUUCUCUGGCCGGCAGCUU
.(((((---------((..(((..((....))...)))(((.((((.....))))...))).)).....(((((.((((......)))))))))))).)).. ( -35.30)
>DroMoj_CAF1 26367 99 + 1
GAUACAGCACGAGUCG---CAAAAGCAUCUGCAUACAGGUGUCAUCAAUACGAUUUCAGGCAGCAUUCCAGCGACGGGCUUUCAGUCGCUAGCUGGCAGCUU
.....(((..((((((---.....(((((((....)))))))........))))))..(.((((.....((((((.........)))))).)))).).))). ( -28.12)
>DroAna_CAF1 15780 90 + 1
CGUUUC---------C---CAGCAACAGCAACAAACUGGAGUGAUCAACACCAUUUCUGGGAGUAUUCCUGCCACAGGAUUUGGUUCCAUGGCUGGCAGCUU
...(((---------(---((((....))........((((((........)))))))))))).....(((((((((((......))).))..))))))... ( -25.20)
>consensus
CGCGCC_________G___CAGCAGCAUCAGCAAACUGGCCUAAUCAACACGAUCUCUGGCAGCAUUCCGGCCACGGGAUUUAGUUCCCUGGCCGGCAGCUU
.......................(((....((...((((....(((.....)))..))))..))...(((((((.((((......)))))))))))..))). (-19.44 = -20.12 +   0.67)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,904,941 – 20,905,031
Length 90
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.51
Mean single sequence MFE -35.77
Consensus MFE -23.31
Energy contribution -23.37
Covariance contribution 0.06
Combinations/Pair 1.44
Mean z-score -1.53
Structure conservation index 0.65
SVM decision value 0.48
SVM RNA-class probability 0.754359
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20904941 90 - 22224390
AAGCUGCCGGCCAGGGAACUAAAUCCCGUGGCCGGAAUGCUGCCAGAGAUCGUGUUGAUUACACCGGCUUGCUGAUGCUGCUG---C---------GGCGCG
.(((..(((((((((((......)))).)))))))...)))(((.......((((.....))))((((..((....)).))))---.---------)))... ( -40.30)
>DroSec_CAF1 24128 90 - 1
AAGCUGCCGGCCAGGGAACUAAAUCCCGUGGCCGGAAUGCUGCCAGAGAUCGUGCUGAUUAGGCCAGCUUGCUGAUGCUGCUG---C---------GGCGCG
.(((..(((((((((((......)))).)))))))...))).........(((((((....(((.(((........)))))).---)---------)))))) ( -42.70)
>DroSim_CAF1 26020 90 - 1
AAGCUGCCGGCCAGGGAACUAAAUCCCGUGGCCGGAAUGCUGCCAGAGAUCGUGUUGAUUAGGCCAGCUUGCUGAUGCUGCUG---C---------GGCGCG
.(((..(((((((((((......)))).)))))))...))).........(((((((....(((.(((........)))))).---)---------)))))) ( -40.20)
>DroYak_CAF1 21370 93 - 1
AAGCUGCCGGCCAGAGAACUGAAUCCCGUGGCCGGAAUGCUGCCGGAGAUCGUGUUGAUCAGGCCAGUUUGCUGAUGCUGCUGCUGC---------GGCGCG
.(((..((((((((.((......)).).)))))))...)))(((...((((.....)))).)))(((....)))..(((((....))---------)))... ( -36.50)
>DroMoj_CAF1 26367 99 - 1
AAGCUGCCAGCUAGCGACUGAAAGCCCGUCGCUGGAAUGCUGCCUGAAAUCGUAUUGAUGACACCUGUAUGCAGAUGCUUUUG---CGACUCGUGCUGUAUC
..((.((...((((((((.(.....).))))))))...)).)).............((((.(((..((.((((((....))))---))))..)))...)))) ( -27.50)
>DroAna_CAF1 15780 90 - 1
AAGCUGCCAGCCAUGGAACCAAAUCCUGUGGCAGGAAUACUCCCAGAAAUGGUGUUGAUCACUCCAGUUUGUUGCUGUUGCUG---G---------GAAACG
...((((((..((.(((......)))))))))))......((((((....((((.....)))).((((.....))))...)))---)---------)).... ( -27.40)
>consensus
AAGCUGCCGGCCAGGGAACUAAAUCCCGUGGCCGGAAUGCUGCCAGAGAUCGUGUUGAUUACGCCAGCUUGCUGAUGCUGCUG___C_________GGCGCG
.(((..(((((((((((......)))).)))))))...)))..........(((((........((((..((....)).)))).............))))). (-23.31 = -23.37 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:39 2006