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blastn
Young edited this page Feb 23, 2024
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blastn
About: |
The NCBI provides a suite of command-line tools to run BLAST called BLAST+. This allows users to perform BLAST searches on their own server without size, volume and database restrictions. BLAST+ can be used with a command line so it can be integrated directly into your workflow.
Results from this process are used by blobtools.
Documentation : https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download
Citation : https://pubmed.ncbi.nlm.nih.gov/2231712/
Directory tree:
blastn
└── sample.tsv
Example file for an individual sample (sample.tsv)
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NODE_1_length_1242649_cov_15.856781 1197719 55040 NODE_1_length_1242649_cov_15.856781 NC_021870.1 90.873 41087 3686 49 112636 153694 2245519 2204469 0.0
NODE_1_length_1242649_cov_15.856781 2587528 26168 NODE_1_length_1242649_cov_15.856781 NZ_CABEJC010000037.1 91.214 19326 1575 99 207094 226370 35687 16436 0.0
NODE_1_length_1242649_cov_15.856781 1463165 22622 NODE_1_length_1242649_cov_15.856781 NZ_CP065838.1 87.913 19343 2180 122 207098 226370 919743 938997 0.0
NODE_1_length_1242649_cov_15.856781 2058152 22541 NODE_1_length_1242649_cov_15.856781 NZ_LR607336.1 87.849 19340 2183 132 207094 226370 1189470 1208705 0.0
NODE_1_length_1242649_cov_15.856781 1134687 22192 NODE_1_length_1242649_cov_15.856781 NZ_AP022547.1 88.508 18431 1999 94 207987 226370 1050330 1068688 0.0
NODE_1_length_1242649_cov_15.856781 571 21919 NODE_1_length_1242649_cov_15.856781 NZ_CP033844.1 88.228 18434 2061 85 207990 226380 2426251 2407884 0.0
NODE_1_length_1242649_cov_15.856781 2587529 21889 NODE_1_length_1242649_cov_15.856781 NZ_CP073236.1 88.232 18423 2036 96 207990 226370 2882219 2863887 0.0
NODE_1_length_1242649_cov_15.856781 1218085 20312 NODE_1_length_1242649_cov_15.856781 NZ_CP082833.1 81.399 25224 4395 243 1184040 1209107 4454964 4480046 0.0
NODE_1_length_1242649_cov_15.856781 57706 18258 NODE_1_length_1242649_cov_15.856781 NZ_CP045771.1 80.798 23633 4275 204 1185623 1209107 4102753 4126270 0.0
NODE_2_length_728624_cov_16.611237 99287 3.203e+05 NODE_2_length_728624_cov_16.611237 NC_003197.2 99.159 177956 1420 30 145429 323336 3414278 3236351 0.0
NODE_2_length_728624_cov_16.611237 1197719 51232 NODE_2_length_728624_cov_16.611237 NC_021870.1 89.889 39888 3941 74 387216 427071 3028150 2988323 0.0
NODE_2_length_728624_cov_16.611237 290338 21745 NODE_2_length_728624_cov_16.611237 NC_009792.1 90.049 16852 1585 71 106665 123466 4225295 4208486 0.0
NODE_2_length_728624_cov_16.611237 35703 19470 NODE_2_length_728624_cov_16.611237 NZ_CP014070.2 90.074 15091 1390 63 108309 123363 4994438 4979420 0.0
NODE_2_length_728624_cov_16.611237 1218085 18053 NODE_2_length_728624_cov_16.611237 NZ_CP082833.1 85.137 17783 2487 113 79036 96761 727737 710054 0.0
NODE_2_length_728624_cov_16.611237 2653932 15904 NODE_2_length_728624_cov_16.611237 NZ_WHIY01000014.1 87.499 13903 1584 92 113516 127353 42859 29046 0.0
NODE_2_length_728624_cov_16.611237 67827 15490 NODE_2_length_728624_cov_16.611237 NZ_CP044101.1 87.268 13674 1616 98 115020 128610 4515165 4501534 0.0
NODE_2_length_728624_cov_16.611237 1748967 15439 NODE_2_length_728624_cov_16.611237 NZ_CP069763.1 87.199 13671 1629 91 115020 128610 621140 607511 0.0
NODE_2_length_728624_cov_16.611237 57706 14659 NODE_2_length_728624_cov_16.611237 NZ_CP045771.1 85.618 14038 1934 66 558414 572424 2068965 2082944 0.0
NODE_2_length_728624_cov_16.611237 1563222 14543 NODE_2_length_728624_cov_16.611237 NZ_CP077262.1 87.993 12384 1392 69 115020 127346 819475 831820 0.0
NODE_3_length_525710_cov_16.014603 99287 2.359e+05 NODE_3_length_525710_cov_16.014603 NC_003197.2 98.746 132738 1627 25 322499 455210 616445 749171 0.0
NODE_3_length_525710_cov_16.014603 1197719 44422 NODE_3_length_525710_cov_16.014603 NC_021870.1 90.203 34175 3197 107 209960 244051 427864 461970 0.0
NODE_3_length_525710_cov_16.014603 2562449 18432 NODE_3_length_525710_cov_16.014603 NZ_CP038469.1 88.589 15249 1644 77 199322 214513 2204559 2189350 0.0
NODE_3_length_525710_cov_16.014603 67829 18244 NODE_3_length_525710_cov_16.014603 NZ_QFVP01000002.1 88.368 15251 1674 86 199322 214510 169614 184826 0.0
NODE_3_length_525710_cov_16.014603 1639133 16624 NODE_3_length_525710_cov_16.014603 NZ_CP092466.1 81.192 20837 3764 134 279742 300493 3734165 3713399 0.0
NODE_3_length_525710_cov_16.014603 1748967 16380 NODE_3_length_525710_cov_16.014603 NZ_CP069763.1 80.989 20830 3800 134 279750 300493 2638119 2658874 0.0
NODE_3_length_525710_cov_16.014603 67827 16281 NODE_3_length_525710_cov_16.014603 NZ_CP044101.1 80.903 20831 3816 137 279750 300493 1567877 1588632 0.0
NODE_3_length_525710_cov_16.014603 2546350 16054 NODE_3_length_525710_cov_16.014603 NZ_CP037864.1 80.690 20839 3877 129 279734 300493 1339650 1360420 0.0
NODE_3_length_525710_cov_16.014603 2894201 15976 NODE_3_length_525710_cov_16.014603 NZ_JAJJVQ010000002.1 80.647 20834 3859 149 279754 300493 265867 286621 0.0
NODE_3_length_525710_cov_16.014603 133448 14737 NODE_3_length_525710_cov_16.014603 NZ_JASUWQ010000001.1 83.102 16321 2625 100 209964 226217 1129657 1145911 0.0
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NODE_4_length_404925_cov_15.666975 1197719 47122 NODE_4_length_404925_cov_15.666975 NC_021870.1 90.813 35277 3167 62 138181 173415 2607304 2572060 0.0
NODE_4_length_404925_cov_15.666975 3029761 17470 NODE_4_length_404925_cov_15.666975 NZ_JADBRO010000006.1 87.258 15413 1843 81 321325 336661 136288 120921 0.0
NODE_4_length_404925_cov_15.666975 2494701 17439 NODE_4_length_404925_cov_15.666975 NZ_CP043318.1 87.205 15436 1839 94 321324 336675 3551694 3536311 0.0
NODE_4_length_404925_cov_15.666975 2994648 17372 NODE_4_length_404925_cov_15.666975 NZ_JAPKNE010000002.1 87.135 15422 1858 84 321320 336663 76340 91713 0.0
NODE_4_length_404925_cov_15.666975 550 17352 NODE_4_length_404925_cov_15.666975 NZ_OW968328.1 87.121 15420 1855 87 321323 336661 3401207 3385838 0.0
NODE_4_length_404925_cov_15.666975 2071710 17278 NODE_4_length_404925_cov_15.666975 NZ_CP027986.1 87.034 15417 1871 86 321325 336661 3271946 3256578 0.0
NODE_4_length_404925_cov_15.666975 61645 17270 NODE_4_length_404925_cov_15.666975 NZ_AP019630.1 87.023 15420 1871 86 321324 336662 3252279 3236909 0.0
NODE_4_length_404925_cov_15.666975 208224 17221 NODE_4_length_404925_cov_15.666975 NZ_KI973153.1 86.969 15417 1880 86 321325 336661 955797 971164 0.0
NODE_4_length_404925_cov_15.666975 2926467 17095 NODE_4_length_404925_cov_15.666975 NZ_JAMHKR010000089.1 86.812 15416 1914 77 321323 336661 163875 148502 0.0
NODE_5_length_402202_cov_16.506440 99287 95243 NODE_5_length_402202_cov_16.506440 NC_003197.2 99.203 52849 402 188111 240942 3820438 3767592 0.0
NODE_5_length_402202_cov_16.506440 1197719 31242 NODE_5_length_402202_cov_16.506440 NC_021870.1 90.576 23630 2165 46 343590 367184 3538843 3515241 0.0
NODE_5_length_402202_cov_16.506440 2587528 15889 NODE_5_length_402202_cov_16.506440 NZ_CABEJC010000015.1 90.891 11868 1039 37 304434 316281 119603 107758 0.0
NODE_5_length_402202_cov_16.506440 2153354 15149 NODE_5_length_402202_cov_16.506440 NZ_CP036175.1 90.223 11629 1108 28 304434 316049 450682 462294 0.0
NODE_5_length_402202_cov_16.506440 1639133 13204 NODE_5_length_402202_cov_16.506440 NZ_CP092466.1 83.980 13895 2093 94 374642 388454 393373 407216 0.0
NODE_5_length_402202_cov_16.506440 2894201 13103 NODE_5_length_402202_cov_16.506440 NZ_JAJJVQ010000005.1 83.766 13940 2152 90 374575 388457 37716 23831 0.0
NODE_5_length_402202_cov_16.506440 1563222 12290 NODE_5_length_402202_cov_16.506440 NZ_CP077262.1 82.428 14216 2365 105 338337 352487 612823 626970 0.0
NODE_5_length_402202_cov_16.506440 35703 11880 NODE_5_length_402202_cov_16.506440 NZ_CP014070.2 84.895 11817 1727 49 14529 26315 544025 532237 0.0
NODE_5_length_402202_cov_16.506440 67824 11699 NODE_5_length_402202_cov_16.506440 NZ_RHWV01000004.1 84.611 11827 1757 51 14529 26321 78396 90193 0.0
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NODE_6_length_297459_cov_16.665781 99287 1.281e+05 NODE_6_length_297459_cov_16.665781 NC_003197.2 99.183 71135 580 1 160811 231944 4786316 4857450 0.0
NODE_6_length_297459_cov_16.665781 1197719 44030 NODE_6_length_297459_cov_16.665781 NC_021870.1 91.529 32051 2590 72 42356 74338 4456696 4488689 0.0
NODE_6_length_297459_cov_16.665781 208962 12142 NODE_6_length_297459_cov_16.665781 NZ_CP070290.1 81.850 14738 2400 210 184815 199412 3802990 3788388 0.0
NODE_6_length_297459_cov_16.665781 1639133 11433 NODE_6_length_297459_cov_16.665781 NZ_CP092466.1 84.237 11800 1802 47 69422 81188 4507551 4495777 0.0
NODE_6_length_297459_cov_16.665781 1748967 10484 NODE_6_length_297459_cov_16.665781 NZ_CP069763.1 83.403 11406 1794 79 229878 241238 2010113 2021464 0.0
NODE_6_length_297459_cov_16.665781 67827 10479 NODE_6_length_297459_cov_16.665781 NZ_CP044101.1 83.401 11410 1787 83 229878 241238 974677 986028 0.0
NODE_6_length_297459_cov_16.665781 564 10035 NODE_6_length_297459_cov_16.665781 NZ_CP083638.1 86.521 9177 1173 50 9562 18708 3136733 3127591 0.0
NODE_6_length_297459_cov_16.665781 1259973 9710 NODE_6_length_297459_cov_16.665781 NZ_CP041247.1 95.451 6089 277 117175 123263 1141243 1135155 0.0
NODE_6_length_297459_cov_16.665781 290338 9014 NODE_6_length_297459_cov_16.665781 NC_009792.1 87.129 8018 951 54 9524 17491 3402010 3394024 0.0
NODE_6_length_297459_cov_16.665781 2762229 8708 NODE_6_length_297459_cov_16.665781 NZ_JAINCF010000001.1 88.690 7153 787 18 9562 16699 116773 123918 0.0
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NODE_7_length_236828_cov_15.818193 1197719 40577 NODE_7_length_236828_cov_15.818193 NC_021870.1 91.375 29659 2534 18 191514 221161 925865 955510 0.0
NODE_7_length_236828_cov_15.818193 67826 14161 NODE_7_length_236828_cov_15.818193 NZ_CP071070.1 86.477 12993 1650 92 191515 204452 2866343 2853403 0.0
NODE_7_length_236828_cov_15.818193 1639133 14116 NODE_7_length_236828_cov_15.818193 NZ_CP092466.1 86.405 13005 1654 82 191513 204446 3317865 3304904 0.0
NODE_7_length_236828_cov_15.818193 546 14048 NODE_7_length_236828_cov_15.818193 NZ_LR890181.1 86.320 13012 1651 96 191513 204446 3189569 3176609 0.0
NODE_7_length_236828_cov_15.818193 35703 13891 NODE_7_length_236828_cov_15.818193 NZ_CP014070.2 86.108 12986 1700 80 191514 204442 3742331 3729393 0.0
NODE_7_length_236828_cov_15.818193 2546350 13623 NODE_7_length_236828_cov_15.818193 NZ_CP037864.1 86.468 12496 1599 70 191513 203951 1813464 1825924 0.0
NODE_7_length_236828_cov_15.818193 67827 9413 NODE_7_length_236828_cov_15.818193 NZ_CP044101.1 85.812 8937 1197 48 191513 200401 2010059 2018972 0.0
NODE_7_length_236828_cov_15.818193 1748967 9359 NODE_7_length_236828_cov_15.818193 NZ_CP069763.1 85.701 8938 1206 48 191513 200401 3034420 3043334 0.0
NODE_7_length_236828_cov_15.818193 1218085 9297 NODE_7_length_236828_cov_15.818193 NZ_CP082833.1 85.605 8927 1209 53 191515 200401 4530237 4521347 0.0
NODE_8_length_226394_cov_16.189184 99287 1.281e+05 NODE_8_length_226394_cov_16.189184 NC_003197.2 99.041 71443 675 8 53203 124642 117019 188454 0.0
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NODE_8_length_226394_cov_16.189184 1563222 23015 NODE_8_length_226394_cov_16.189184 NZ_CP077262.1 89.557 18194 1839 53 9931 28089 4401444 4383277 0.0
NODE_8_length_226394_cov_16.189184 1748967 18988 NODE_8_length_226394_cov_16.189184 NZ_CP069763.1 83.782 20305 3005 212 98451 118617 2123179 2143333 0.0
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NODE_9_length_176892_cov_16.836778 99287 1.443e+05 NODE_9_length_176892_cov_16.836778 NC_003197.2 99.224 80010 600 7 1 80005 4351124 4271131 0.0
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NODE_9_length_176892_cov_16.836778 1914243 14778 NODE_9_length_176892_cov_16.836778 NZ_PQSZ01000012.1 87.728 12712 1501 49 145870 158557 30620 17944 0.0
NODE_9_length_176892_cov_16.836778 2899544 14654 NODE_9_length_176892_cov_16.836778 NZ_WMJZ01000029.1 96.374 8907 317 5 93686 102589 3476 12379 0.0
NODE_9_length_176892_cov_16.836778 290338 14248 NODE_9_length_176892_cov_16.836778 NC_009792.1 83.580 15359 2367 108 13138 28411 2814367 2829655 0.0
NODE_9_length_176892_cov_16.836778 2546350 13298 NODE_9_length_176892_cov_16.836778 NZ_CP037864.1 82.481 15326 2546 116 13160 28410 256282 241021 0.0
NODE_9_length_176892_cov_16.836778 67827 11546 NODE_9_length_176892_cov_16.836778 NZ_CP044101.1 81.886 13846 2368 113 162589 176376 326797 313034 0.0
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NODE_10_length_118299_cov_17.704651 99287 75180 NODE_10_length_118299_cov_17.704651 NC_003197.2 99.261 41654 271 14 30907 72544 4517656 4559288 0.0
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NODE_10_length_118299_cov_17.704651 546 17365 NODE_10_length_118299_cov_17.704651 NZ_LR890181.1 83.705 18625 2802 170 19186 37679 4520772 4502250 0.0
NODE_10_length_118299_cov_17.704651 133448 15265 NODE_10_length_118299_cov_17.704651 NZ_JASUWQ010000001.1 84.348 15710 2326 95 19186 34824 245441 261088 0.0
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NODE_11_length_90738_cov_16.295891 1748967 10949 NODE_11_length_90738_cov_16.295891 NZ_CP069763.1 83.279 11997 1907 75 54986 66929 780616 768666 0.0
NODE_11_length_90738_cov_16.295891 2653932 10824 NODE_11_length_90738_cov_16.295891 NZ_WHIY01000018.1 83.079 11985 1949 65 54983 66930 31758 19816 0.0
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NODE_11_length_90738_cov_16.295891 1563222 8102 NODE_11_length_90738_cov_16.295891 NZ_CP077262.1 85.304 7866 1134 19 82858 90712 170499 162645 0.0
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NODE_24_length_1828_cov_34.456790 244366 778 NODE_24_length_1828_cov_34.456790 NZ_CP045783.1 83.432 845 132 988 1827 5487239 5488080 0.0
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NODE_25_length_1264_cov_106.442392 1755099 1690 NODE_25_length_1264_cov_106.442392 NZ_FCOP01000010.1 91.052 1274 80 28 1 1264 197585 196336 0.0
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NODE_27_length_1073_cov_147.386892 550 1932 NODE_27_length_1073_cov_147.386892 NZ_OW968328.1 99.161 1073 9 1073 269579 268507 0.0
NODE_27_length_1073_cov_147.386892 1646340 1923 NODE_27_length_1073_cov_147.386892 NZ_CP063425.1 99.157 1068 9 1068 17389 16322 0.0
NODE_27_length_1073_cov_147.386892 2608867 1923 NODE_27_length_1073_cov_147.386892 NZ_JAVIWS010000001.1 99.157 1068 1068 2335370 2336437 0.0
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NODE_27_length_1073_cov_147.386892 299766 1923 NODE_27_length_1073_cov_147.386892 NZ_CP100388.1 99.157 1068 9 1068 4553480 4554547 0.0
NODE_27_length_1073_cov_147.386892 881260 1921 NODE_27_length_1073_cov_147.386892 NZ_CP083403.1 98.975 1073 11 1073 909076 908004 0.0
NODE_27_length_1073_cov_147.386892 208224 1921 NODE_27_length_1073_cov_147.386892 NZ_KI973153.1 98.975 1073 11 1073 650356 649284 0.0
NODE_27_length_1073_cov_147.386892 2478464 1921 NODE_27_length_1073_cov_147.386892 NZ_AP019007.1 98.975 1073 11 1073 2743129 2742057 0.0
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There are no files created for an entire run
-
- amrfinderplus
- bbduk
- blastn
- blobtools_*
- core_genome_evaluation
- circulocov
- datasets_*
- drprg
- elgato
- emmtyper
- fastani
- fastp
- fastqc
- heatcluster
- iqtree2
- kaptive
- kleborate
- kraken2
- mash_*
- mashtree
- mlst
- multiqc
- mykrobe
- panaroo
- pbptyper
- phytreeviz
- plasmidfinder
- prokka
- quast
- seqsero2
- serotypefinder
- shigatyper
- snp_dists
- spades