MCGB B2DSC Faidx TNAC-marker MGOC TR

Wheat and its relatives:

Peanut and its relatives:

Triticum aestivum (bread wheat) --- IWGSC RefSeq v1.0

Genome: AABBDD Cultivar: Chinese Spring

Analysed the IWGSC RefSeq v1.0 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Triticum urartu --- Tu2.0

Genome: AA Cultivar: G1812

Analysed the Tu2.0 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Aegilops tauschii subsp. strangulata --- Aet v4.0

Genome: DD Cultivar: AL8/78

Analysed the Aet v4.0 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Triticum dicoccoides (wild emmer wheat) --- WEWSeq v.1.0

Genome: BBAA Ecotype: Zavitan

Analysed the WEWSeq v.1.0 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Hordeum vulgare --- IBSC_v2

Genome: HH Cultivar: Morex

Analysed the IBSC_v2 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Arachis hypogaea (cultivated peanut) --- Tifrunner.gnm1.KYV3

Genome: AABB Cultivar: Tifrunner

Analysed the Tifrunner.gnm1.KYV3 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Arachis duranensis --- V14167.gnm1.SWBf

Genome: AA Cultivar: V14167

Analysed the V14167.gnm1.SWBf assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Arachis ipaensis --- K30076.gnm1.bXJ8

Genome: BB Cultivar: K30076

Analysed the K30076.gnm1.bXJ8 assembly using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Arachis hypogaea (cultivated peanut) --- ASM371315v1 (Shitouqi)

Genome: AABB Cultivar: Shitouqi

Analysed the ASM371315v1 assembly (data downloaded from The Peanut Genome Resource) using TRF Version 4.09, the main parameters are: 2 7 7 80 10 50 2000.
Then non-redundant TR arrays (Percent Matches ≥ 80) were filtered out by an in house script, the flow is shown in flow-to-get-NR-TR-arrays.pdf.


Files


Query

Update log:

No longer only limited to wheat and its relatives.