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Platform GPL5878 Query DataSets for GPL5878
Status Public on Dec 13, 2007
Title JCVI PFGRC Staphylococcus aureus 22K v6 array designed primarily based on strain MSSA476
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Staphylococcus aureus
Manufacturer JCVI PFGRC
Manufacture protocol 6QSA, with arrayer GENETIX, machine cycles 0, pen id 0, pen cycles 0, operator 0, humidity control 0, humidity set point0.000
Support glass
Coating aminosilane
 
Description This set includes 4440 oligonucleotides, has 22176 spots distributed in 48 blocks.
 
Web link http://pfgrc.jcvi.org/descriptionPages.shtml
Submission date Sep 17, 2007
Last update date Dec 13, 2007
Contact name PFGRC JCVI
E-mail(s) jli@jcvi.org
Phone 3017957840
Organization name J. Craig Venter Institute
Department PFGRC
Street address 9704 Medical Center Drive
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
 

Data table header descriptions
ID
SEQUENCE Oligo sequence
GC% GC content of the sequence
Internal Repeat Score Internal repeat score
Self-Annealing Score Self-anneal score
Primary Strain The strain of primary target
Primary Target Locus primarily hit by the oligo
Common Name of Primary Target Common name of primary target
Gene Symbol Gene symbol
Strain MRSA252 Target map of strain MRSA252
Strain MSSA476 Target map of strain MSSA476
Strain COL Target map of strain COL
Strain Mu50 Target map of strain Mu50
Strain MW2 Target map of strain MW2
Strain N315 Target map of strain N315
ORF primary target linkin Entrez Gene
SPOT_ID

Data table
ID SEQUENCE GC% Internal Repeat Score Self-Annealing Score Primary Strain Primary Target Common Name of Primary Target Gene Symbol Strain MRSA252 Strain MSSA476 Strain COL Strain Mu50 Strain MW2 Strain N315 ORF SPOT_ID
6QSA00001_A_1 GGTAATAGCTATTATCATTTTTGAATTAATTATATTAATGTGTTTAGCAATAGCACTGGAGGTGTTGTAA 27.14 34 104 MSSA476 SAS0923a hypothetical protein SAR1526a::70::100.0::1.3E-10::+,SAR1563::70::100.0::1.3E-10::+ SAS0923a::70::100.0::1.3E-10::+ SAS0923a
6QSA00001_A_10 CTTGTCTTTGATCGCCAAACATTATCAATCCCACCCTTATATTTATTTATCTTTAATATATAACAACATT 27.14 33 80 N315 SAP030 hypothetical protein SAR0686::70::98.57143::3.4E-10::-,SAR0685::70::98.57143::3.4E-10::- SAP030::70::100.0::8.2E-11::+ SAP030
6QSA00001_A_11 TGAAATGCTGATGGTTGTATTAACAATCATTGGTTTAGTATTGATTAGTACTCAAGACCATAAAAAATAA 27.14 32 100 MSSA476 SAS2051 hypothetical protein SAR2237::70::98.57143::2.8E-10::+ SAS2051::70::100.0::1.1E-10::+ MW2072::70::100.0::1.1E-10::+ SAS2051
6QSA00001_A_12 ATCTAGTTCTCTTAATTAAGTTCTTATCAAAAAAACTTATCCACCTGTACTGGATAGATATGACCATCAA 30.0 31 100 Mu50 SAV0396 hypothetical protein SAV0396::70::100.0::8.2E-11::+ SAV0396
6QSA00001_A_13 CACTTCTTTTTAGACATTGTCGAATCGAAGATTGAAACAAAGCGAACTGCGAAAAGTTTTAAAGATATTT 31.43 31 98 MSSA476 SAS1879 hypothetical protein SAS1879::70::100.0::7.4E-11::+,SAS1862::70::100.0::1.3E-10::- MW1896::70::100.0::1.1E-10::+ SAS1879
6QSA00001_A_14 ATATATTTAATATTGTTTTTATTAAGCCTACCATTGTTATTATTTATCGGGAGAAAAACACATTTTTATT 20.0 33 136 Mu50 SAV0915 hypothetical protein SACOL0910::70::97.14286::5.3E-10::+ SAV0915::70::100.0::8.2E-11::+ SAV0915
6QSA00001_A_15 AGCGCGTTTATACAGAAATGTATTTTCTGTGATGTTACGCAATGATTTAAAGCGTTATATAGATTTTTAG 30.0 31 102 MSSA476 SAS2579a hypothetical protein SAS2579a::70::100.0::1.1E-10::+ MW2614::70::100.0::1.1E-10::+ SAS2579a
6QSA00001_A_16 TATACGCGAGTATGATTTAACACCTTCCGCGTTAGGGAAATGGATAAAGCAACATCAAAACACAGGTTGA 40.0 28 80 MSSA476 SAS0050 pseudo SAR0081::67::92.537315::1.5E-8::+ SAS0050::70::100.0::8.2E-11::+ MW0050::70::100.0::8.2E-11::+ SAS0050
6QSA00001_A_17 CGGACGATTGTGTTCTAATCATAGAGGCTCAATGGAAGAACTACGGGACGAAAACCAGACGATAACTCAA 44.29 31 81 MSSA476 SAS2107b hypothetical protein SAS2107b::70::100.0::1.0E-10::+ MW2135::70::100.0::1.0E-10::+ SAS2107b
6QSA00001_A_18 GATGACAACCAATTACTATGTTGAATCTATAAAATTAAAATTGAATTTCATTATGAATATCGATATAATG 21.43 34 122 COL SACOL0933 hypothetical protein SACOL0933::70::100.0::8.2E-11::+ SACOL0933
6QSA00001_A_19 TTAATTATTCTTTGTATGATACCTTAAATACCTTATTACATATCCCATATGAAAACGGCTTTTTTATTAT 22.86 32 97 Mu50 SAV1299 hypothetical protein SAR1273a::70::97.14286::5.9E-10::+ SAS1231a::70::98.57143::2.3E-10::+ SAV1299::70::100.0::1.0E-10::+ MW1181::70::98.57143::2.6E-10::+ SAS038::70::100.0::1.0E-10::+ SAV1299
6QSA00001_A_2 GTATATAAAAAATGCTTCTGCAATAGATGCAATAAACATGCAATACAATATGGAGGCGAAGTAAATGAAA 30.0 33 84 COL SACOL2595 hypothetical protein SACOL2595::70::100.0::8.4E-11::+ SACOL2595
6QSA00001_A_20 TCGTTGTGCACACAACAAAAATTGAATCATGAATTACAAGCAAAAGTAGCGGTGATTGTTAAAATTGATG 32.86 32 80 Obsolete Obsolete Obsolete --Obsolete
6QSA00001_A_21 TCCATATATGCTTTGTAGTCAAAACTGCTAGCGGATATTGTTATCTTAACAAACGTGAAGCTCAAGCAGC 38.57 30 94 MSSA476 SAS1595 hypothetical protein SAR1746::70::100.0::1.0E-10::+ SAS1595::70::100.0::1.0E-10::+ SAV1666::70::100.0::1.0E-10::+ MW1610::70::100.0::1.0E-10::+ SAS051::70::100.0::1.0E-10::+ SAS1595
6QSA00001_A_22 GATGACTATTAAAGTGCGAAAAACAAATAAAAAAGAGAAAATAGAATTTTTAATAGGGACGTTTATAATT 22.86 33 89 COL SACOL1334 hypothetical protein SACOL1334::70::100.0::8.2E-11::+ SACOL1334
6QSA00001_A_23 AGGCGATGTGAAAGTTAAAGAGCGGGAGATAGAGATATTAAGAAGTAGATTGAGACATTTTGAAGGTTAA 35.71 32 48 Mu50 SAV0883 hypothetical protein SAV0883::70::100.0::1.0E-10::+ SAV0883
6QSA00001_A_24 AAAATACGAACGAATGAGCGATATGATAATATAGATAAGAATGATTTTAATTTAGGAGGCCTTTATGGTG 30.0 33 78 COL SACOL1890 hypothetical protein SACOL1890::70::100.0::8.2E-11::+ SACOL1890
6QSA00001_A_3 ATGAAAGTTGCCTTTTTATTTTTGGTAAAAGTTCATGCGTCAGTGAATTGTGTAAGTTTTTCAAAAAGTA 28.57 34 106 Mu50 SAV1477 hypothetical protein SAV1477::70::100.0::1.2E-10::+ SAS046::70::100.0::1.2E-10::+ SAV1477
6QSA00001_A_4 CAATTAAAAAAGCATCAAACAGTAATATGCTGCTTGATGCAATATGGTATTGGTTAAAATGTATTGTCTC 30.0 34 126 MRSA252 SAR395a hypothetical protein SAR395a::70::100.0::8.4E-11::+ SAR395a
6QSA00001_A_5 CTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCAAAATCAACTAATAAATTAATGA 22.86 33 103 MSSA476 SAS2401a hypothetical protein SAS2401a::70::100.0::1.2E-10::+ MW2436::70::100.0::1.2E-10::+ SAS2401a

Total number of rows: 5056

Table truncated, full table size 1372 Kbytes.




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