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"GTGCC":557118, "GTGCG":258715, "GTGGA":706946, "GTGGT":1117384, "GTGGC":1092695, "GTGGG":935755, "GCAAA":618150, "GCAAT":449035, "GCAAC":689571, "GCAAG":516387, "GCATA":363650, "GCATT":525301, "GCATC":608301, "GCATG":548850, "GCACA":732312, "GCACT":617805, "GCACC":569786, "GCACG":532753, "GCAGA":837194, "GCAGT":881681, "GCAGC":1036603, "GCAGG":1236304, "GCTAA":315566, "GCTAT":600508, "GCTAC":330633, "GCTAG":260060, "GCTTA":301517, "GCTTT":756466, "GCTTC":937369, "GCTTG":849958, "GCTCA":855407, "GCTCT":778319, "GCTCC":1297038, "GCTCG":296592, "GCTGA":795997, "GCTGT":820322, "GCTGC":950473, "GCTGG":1555692, "GCCAA":617511, "GCCAT":678348, "GCCAC":879462, "GCCAG":1100905, "GCCTA":264890, "GCCTT":770895, "GCCTC":1015330, "GCCTG":992934, "GCCCA":933570, "GCCCT":688125, "GCCCC":763582, "GCCCG":414636, "GCCGA":466164, "GCCGT":259871, "GCCGC":417438, "GCCGG":695323, "GCGAA":137740, "GCGAT":454327, "GCGAC":157067, "GCGAG":280043, "GCGTA":117611, "GCGTT":192927, "GCGTC":219411, "GCGTG":262759, 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"GGGTT":633889, "GGGTC":709339, "GGGTG":966068, "GGGCA":1028280, "GGGCT":918500, "GGGCC":1112737, "GGGCG":571859, "GGGGA":1073156, "GGGGT":959585, "GGGGC":1081776, "GGGGG":1264710 }, "overrepresented_sequences": { } }, "read2_before_filtering": { "total_reads": 11729277, "total_bases": 692027343, "q20_bases": 675347773, "q30_bases": 655509600, "total_cycles": 59, "quality_curves": { "A":[33.5711,33.3028,32.589,32.7165,32.9539,32.9459,32.8919,32.931,33.0465,32.9883,32.9833,32.9139,33.0096,32.983,32.98,32.9549,32.9321,32.938,32.9312,32.9187,32.9186,32.8997,32.8881,32.9041,32.8964,33.04,33.0682,33.038,33.0553,33.0364,33.0165,33.0289,33.0105,33.0092,33.0218,33.0144,33.0121,32.9899,33.0117,33.0019,32.9989,33.0026,32.9689,32.9623,32.9445,32.9531,32.958,32.9385,32.9584,32.9454,32.9506,32.9594,32.9327,32.9165,32.8905,32.8957,32.9027,32.886,32.4715], 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"GC":[0.763969,0.562337,0.579344,0.577879,0.515257,0.483354,0.39286,0.455668,0.448534,0.42746,0.515209,0.491734,0.480397,0.482628,0.486464,0.496264,0.489428,0.491725,0.50022,0.493478,0.49686,0.498399,0.488009,0.4927,0.498719,0.496135,0.504193,0.504678,0.509463,0.504746,0.513317,0.503602,0.510739,0.511311,0.506816,0.502552,0.505553,0.510447,0.507286,0.513922,0.50336,0.496576,0.510977,0.50365,0.501851,0.511792,0.501344,0.500903,0.507579,0.49981,0.51045,0.517654,0.512586,0.516376,0.522961,0.519521,0.516243,0.513211,0.508886] }, "kmer_count": { "AAAAA":2289866, "AAAAT":1240102, "AAAAC":817812, "AAAAG":970431, "AAATA":949231, "AAATT":873928, "AAATC":627873, "AAATG":837913, "AAACA":949640, "AAACT":722249, "AAACC":526731, "AAACG":180136, "AAAGA":906151, "AAAGT":724113, "AAAGC":664280, "AAAGG":802101, "AATAA":782463, "AATAT":584357, "AATAC":465221, "AATAG":396601, "AATTA":534169, "AATTT":894570, "AATTC":614618, "AATTG":431676, "AATCA":591688, "AATCT":648407, "AATCC":544059, "AATCG":136167, 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"TATTA":475684, "TATTT":938214, "TATTC":710326, "TATTG":624801, "TATCA":408223, "TATCT":463219, "TATCC":324565, "TATCG":100176, "TATGA":362202, "TATGT":445047, "TATGC":245741, "TATGG":313274, "TACAA":639584, "TACAT":459745, "TACAC":339028, "TACAG":610882, "TACTA":270953, "TACTT":540267, "TACTC":380789, "TACTG":698130, "TACCA":402099, "TACCT":335895, "TACCC":335373, "TACCG":71255, "TACGA":111785, "TACGT":169395, "TACGC":73746, "TACGG":139433, "TAGAA":538903, "TAGAT":371040, "TAGAC":235770, "TAGAG":440662, "TAGTA":339646, "TAGTT":443469, "TAGTC":359179, "TAGTG":389572, "TAGCA":419019, "TAGCT":442504, "TAGCC":365101, "TAGCG":146728, "TAGGA":518905, "TAGGT":368489, "TAGGC":670582, "TAGGG":407462, "TTAAA":900287, "TTAAT":548211, "TTAAC":340725, "TTAAG":458348, "TTATA":447499, "TTATT":840736, "TTATC":392032, "TTATG":366091, "TTACA":559358, "TTACT":424694, "TTACC":261480, "TTACG":103851, "TTAGA":374249, "TTAGT":412762, "TTAGC":346508, "TTAGG":724521, "TTTAA":895381, "TTTAT":867177, 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"CAACC":734062, "CAACG":138808, "CAAGA":597044, "CAAGT":559798, "CAAGC":477095, "CAAGG":668280, "CATAA":483626, "CATAT":704181, "CATAC":350147, "CATAG":484744, "CATTA":444553, "CATTT":1001181, "CATTC":666594, "CATTG":600255, "CATCA":977302, "CATCT":1059530, "CATCC":762743, "CATCG":222248, "CATGA":635585, "CATGT":634143, "CATGC":526969, "CATGG":804774, "CACAA":673641, "CACAT":765318, "CACAC":930660, "CACAG":1405862, "CACTA":585633, "CACTT":768242, "CACTC":663373, "CACTG":1057451, "CACCA":1308357, "CACCT":919983, "CACCC":869946, "CACCG":325555, "CACGA":289188, "CACGT":360561, "CACGC":347001, "CACGG":608867, "CAGAA":1007272, "CAGAT":685648, "CAGAC":585393, "CAGAG":1057233, "CAGTA":499664, "CAGTT":746184, "CAGTC":684124, "CAGTG":1143693, "CAGCA":1417358, "CAGCT":1247129, "CAGCC":1141977, "CAGCG":342972, "CAGGA":1258763, "CAGGT":1042841, "CAGGC":1547512, "CAGGG":1332825, "CTAAA":461922, "CTAAT":318557, "CTAAC":223874, "CTAAG":322336, "CTATA":264356, "CTATT":661900, "CTATC":286812, "CTATG":371785, "CTACA":500951, "CTACT":686075, "CTACC":335346, "CTACG":164267, "CTAGA":332462, "CTAGT":246400, "CTAGC":278192, "CTAGG":366990, "CTTAA":448213, "CTTAT":375724, "CTTAC":270480, "CTTAG":746640, "CTTTA":647504, "CTTTT":1170441, "CTTTC":966392, "CTTTG":930058, "CTTCA":1319882, "CTTCT":1658148, "CTTCC":1239835, "CTTCG":300099, "CTTGA":976643, "CTTGT":865520, "CTTGC":693449, "CTTGG":1088865, "CTCAA":694189, "CTCAT":829073, "CTCAC":721818, "CTCAG":1194655, "CTCTA":464272, "CTCTT":1075629, "CTCTC":1012152, "CTCTG":1170825, "CTCCA":1392025, "CTCCT":1862854, "CTCCC":1365139, "CTCCG":573886, "CTCGA":283288, "CTCGT":366468, "CTCGC":367894, "CTCGG":519910, "CTGAA":938747, "CTGAT":847499, "CTGAC":548801, "CTGAG":992141, "CTGTA":639437, "CTGTT":831698, "CTGTC":785073, "CTGTG":964008, "CTGCA":1010667, "CTGCT":1244100, "CTGCC":1034319, "CTGCG":323122, "CTGGA":1377227, "CTGGT":1234396, "CTGGC":1037673, "CTGGG":1662376, "CCAAA":869184, "CCAAT":541157, "CCAAC":525502, "CCAAG":733305, "CCATA":684324, "CCATT":717792, "CCATC":830648, "CCATG":774541, "CCACA":1081764, "CCACT":1073626, "CCACC":1075087, "CCACG":476275, "CCAGA":919621, "CCAGT":867465, "CCAGC":1252902, "CCAGG":1682405, "CCTAA":294154, "CCTAT":293994, "CCTAC":386550, "CCTAG":319411, "CCTTA":662911, "CCTTT":875576, "CCTTC":1145566, "CCTTG":1001971, "CCTCA":1049985, "CCTCT":1097263, "CCTCC":1680538, "CCTCG":493193, "CCTGA":761939, "CCTGT":815385, "CCTGC":1068261, "CCTGG":1759033, "CCCAA":716744, "CCCAT":669300, "CCCAC":1117874, "CCCAG":1460160, "CCCTA":347587, "CCCTT":723806, "CCCTC":1032790, "CCCTG":896163, "CCCCA":1032267, "CCCCT":895928, "CCCCC":1012335, "CCCCG":801313, "CCCGA":363515, "CCCGT":298099, "CCCGC":738070, "CCCGG":777305, "CCGAA":405676, "CCGAT":196924, "CCGAC":383531, "CCGAG":373424, "CCGTA":141387, "CCGTT":352420, "CCGTC":296907, "CCGTG":341471, "CCGCA":280194, "CCGCT":633064, "CCGCC":496133, "CCGCG":246158, "CCGGA":315736, "CCGGT":451993, "CCGGC":502109, "CCGGG":809227, "CGAAA":148860, "CGAAT":144128, "CGAAC":299217, "CGAAG":349867, "CGATA":95404, "CGATT":165169, "CGATC":500530, "CGATG":323952, "CGACA":178583, "CGACT":146607, "CGACC":328394, "CGACG":178158, "CGAGA":217138, "CGAGT":178856, "CGAGC":244132, "CGAGG":381234, "CGTAA":101576, "CGTAT":124697, "CGTAC":130404, "CGTAG":216236, "CGTTA":89600, "CGTTT":353245, "CGTTC":330933, "CGTTG":247823, "CGTCA":224125, "CGTCT":355267, "CGTCC":313992, "CGTCG":163486, "CGTGA":221367, "CGTGT":237371, "CGTGC":245044, "CGTGG":363096, "CGCAA":122724, "CGCAT":139469, "CGCAC":279546, "CGCAG":365324, "CGCTA":145315, "CGCTT":261101, "CGCTC":626812, "CGCTG":363345, "CGCCA":324028, "CGCCT":388459, "CGCCC":375339, "CGCCG":285667, "CGCGA":361234, "CGCGT":132617, "CGCGC":268938, "CGCGG":319747, "CGGAA":260865, "CGGAT":231430, "CGGAC":245110, "CGGAG":444696, "CGGTA":147097, "CGGTT":352118, "CGGTC":304157, "CGGTG":374839, "CGGCA":358456, "CGGCT":355126, "CGGCC":567865, "CGGCG":414316, "CGGGA":782406, "CGGGT":272935, "CGGGC":550696, 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"TCAGG":783645, "TCTAA":335680, "TCTAT":349347, "TCTAC":464635, "TCTAG":313539, "TCTTA":375477, "TCTTT":790467, "TCTTC":936335, "TCTTG":615602, "TCTCA":722953, "TCTCT":911909, "TCTCC":925067, "TCTCG":270883, "TCTGA":786248, "TCTGT":813172, "TCTGC":803044, "TCTGG":1274754, "TCCAA":638336, "TCCAT":594251, "TCCAC":683120, "TCCAG":1229456, "TCCTA":454759, "TCCTT":732596, "TCCTC":939355, "TCCTG":1337701, "TCCCA":1167580, "TCCCT":919698, "TCCCC":940435, "TCCCG":561922, "TCCGA":236031, "TCCGT":212314, "TCCGC":547290, "TCCGG":378681, "TCGAA":225914, "TCGAT":135342, "TCGAC":168276, "TCGAG":299451, "TCGTA":102242, "TCGTT":138427, "TCGTC":230696, "TCGTG":334304, "TCGCA":162302, "TCGCT":618626, "TCGCC":381616, "TCGCG":134741, "TCGGA":330343, "TCGGT":232517, "TCGGC":516461, "TCGGG":813737, "TGAAA":982361, "TGAAT":620868, "TGAAC":752836, "TGAAG":1357212, "TGATA":376608, "TGATT":595540, "TGATC":695647, "TGATG":937090, "TGACA":714164, "TGACT":633836, "TGACC":831019, "TGACG":227143, "TGAGA":911586, 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"CTATG":656189, "CTACA":594528, "CTACT":731197, "CTACC":463618, "CTACG":223692, "CTAGA":388028, "CTAGT":233357, "CTAGC":253229, "CTAGG":368464, "CTTAA":375040, "CTTAT":330017, "CTTAC":310428, "CTTAG":298434, "CTTTA":446278, "CTTTT":846618, "CTTTC":660702, "CTTTG":883603, "CTTCA":913230, "CTTCT":967442, "CTTCC":1092472, "CTTCG":412981, "CTTGA":918361, "CTTGT":484932, "CTTGC":519752, "CTTGG":775455, "CTCAA":667695, "CTCAT":592438, "CTCAC":710622, "CTCAG":1032256, "CTCTA":431838, "CTCTT":752518, "CTCTC":810934, "CTCTG":1099039, "CTCCA":1038100, "CTCCT":1180954, "CTCCC":1344644, "CTCCG":496617, "CTCGA":201051, "CTCGT":220934, "CTCGC":296894, "CTCGG":702688, "CTGAA":1059825, "CTGAT":738641, "CTGAC":702014, "CTGAG":1434958, "CTGTA":947079, "CTGTT":657196, "CTGTC":770923, "CTGTG":1187771, "CTGCA":1022094, "CTGCT":1097006, "CTGCC":1267596, "CTGCG":445541, "CTGGA":1596782, "CTGGT":849065, "CTGGC":1211719, "CTGGG":1789622, "CCAAA":860748, "CCAAT":396077, "CCAAC":664130, "CCAAG":1075830, "CCATA":286196, "CCATT":602595, "CCATC":885871, "CCATG":907827, "CCACA":850570, "CCACT":731297, "CCACC":1240993, "CCACG":404899, "CCAGA":1155122, "CCAGT":761563, "CCAGC":1553386, "CCAGG":1855940, "CCTAA":459357, "CCTAT":340937, "CCTAC":464569, "CCTAG":366012, "CCTTA":342324, "CCTTT":713052, "CCTTC":997047, "CCTTG":681072, "CCTCA":983047, "CCTCT":922405, "CCTCC":1561704, "CCTCG":433438, "CCTGA":1077199, "CCTGT":1101914, "CCTGC":1220186, "CCTGG":1679239, "CCCAA":785760, "CCCAT":674043, "CCCAC":845839, "CCCAG":1957891, "CCCTA":383652, "CCCTT":746271, "CCCTC":1030826, "CCCTG":1317197, "CCCCA":1177961, "CCCCT":943625, "CCCCC":1000113, "CCCCG":651818, "CCCGA":412701, "CCCGT":339776, "CCCGC":577695, "CCCGG":730676, "CCGAA":291396, "CCGAT":401668, "CCGAC":276845, "CCGAG":535948, "CCGTA":113370, "CCGTT":157926, "CCGTC":304399, "CCGTG":482063, "CCGCA":521186, "CCGCT":373171, "CCGCC":836468, "CCGCG":405783, "CCGGA":392073, "CCGGT":260061, "CCGGC":705370, "CCGGG":702261, "CGAAA":245439, "CGAAT":162391, "CGAAC":163272, "CGAAG":326292, "CGATA":121627, "CGATT":139183, "CGATC":366304, "CGATG":238220, "CGACA":250541, "CGACT":195192, "CGACC":285452, "CGACG":189094, "CGAGA":419827, "CGAGT":299768, "CGAGC":353150, "CGAGG":538877, "CGTAA":97191, "CGTAT":85914, "CGTAC":108577, "CGTAG":107791, "CGTTA":82268, "CGTTT":193489, "CGTTC":165664, "CGTTG":167818, "CGTCA":246962, "CGTCT":264087, "CGTCC":352633, "CGTCG":157577, "CGTGA":324485, "CGTGT":298762, "CGTGC":525846, "CGTGG":544489, "CGCAA":219265, "CGCAT":164564, "CGCAC":387641, "CGCAG":336127, "CGCTA":358816, "CGCTT":586405, "CGCTC":366314, "CGCTG":399397, "CGCCA":484119, "CGCCT":498386, "CGCCC":561832, "CGCCG":496676, "CGCGA":154570, "CGCGT":277895, "CGCGC":339218, "CGCGG":343435, "CGGAA":424016, "CGGAT":200366, "CGGAC":251197, "CGGAG":565073, "CGGTA":81281, "CGGTT":167030, "CGGTC":299644, "CGGTG":444371, "CGGCA":456688, "CGGCT":474289, "CGGCC":705652, "CGGCG":426697, "CGGGA":791603, "CGGGT":501528, "CGGGC":511652, "CGGGG":706980, "GAAAA":1276950, "GAAAT":809652, "GAAAC":846860, "GAAAG":1048555, "GAATA":404085, "GAATT":595345, "GAATC":484207, "GAATG":700791, "GAACA":765604, "GAACT":655379, "GAACC":719551, "GAACG":293577, "GAAGA":1719828, "GAAGT":789018, "GAAGC":1056956, "GAAGG":1283946, "GATAA":391625, "GATAT":335927, "GATAC":254756, "GATAG":282297, "GATTA":374386, "GATTT":590659, "GATTC":485553, "GATTG":472316, "GATCA":642109, "GATCT":595032, "GATCC":587694, "GATCG":836908, "GATGA":1045598, "GATGT":571383, "GATGC":615901, "GATGG":887247, "GACAA":682630, "GACAT":589601, "GACAC":499802, "GACAG":822391, "GACTA":333231, "GACTT":591766, "GACTC":538036, "GACTG":669393, "GACCA":902038, "GACCT":803270, "GACCC":700762, "GACCG":341683, "GACGA":324636, "GACGT":221911, "GACGC":264512, "GACGG":325792, "GAGAA":1363024, "GAGAT":793227, "GAGAC":826158, "GAGAG":1016119, "GAGTA":404736, "GAGTT":837252, "GAGTC":638984, "GAGTG":733262, "GAGCA":937980, "GAGCT":883795, "GAGCC":1073789, "GAGCG":502045, "GAGGA":1908784, "GAGGT":920434, "GAGGC":1499431, "GAGGG":950290, "GTAAA":422440, "GTAAT":330073, "GTAAC":239834, "GTAAG":247584, "GTATA":252852, "GTATT":379274, "GTATC":248293, "GTATG":331097, "GTACA":370328, "GTACT":316066, "GTACC":347838, "GTACG":127323, "GTAGA":386337, "GTAGT":704961, "GTAGC":333093, "GTAGG":267468, "GTTAA":300908, "GTTAT":276572, "GTTAC":266779, "GTTAG":227059, "GTTTA":398141, "GTTTT":752175, "GTTTC":547829, "GTTTG":649935, "GTTCA":524973, "GTTCT":845619, "GTTCC":546550, "GTTCG":349452, "GTTGA":477494, "GTTGT":409787, "GTTGC":528028, "GTTGG":587947, "GTCAA":532840, "GTCAT":445828, "GTCAC":530356, "GTCAG":573318, "GTCTA":236369, "GTCTT":543418, "GTCTC":624613, "GTCTG":634873, "GTCCA":676786, "GTCCT":628849, "GTCCC":894214, "GTCCG":407771, "GTCGA":155023, "GTCGT":190680, "GTCGC":201642, "GTCGG":358157, "GTGAA":961808, "GTGAT":638794, "GTGAC":712591, "GTGAG":739103, "GTGTA":339499, "GTGTT":557619, "GTGTC":747943, "GTGTG":908330, "GTGCA":587884, "GTGCT":762669, "GTGCC":875131, "GTGCG":566350, "GTGGA":1082355, "GTGGT":783719, "GTGGC":1091238, "GTGGG":1137093, "GCAAA":654240, "GCAAT":356799, "GCAAC":489489, "GCAAG":745403, "GCATA":220150, "GCATT":444193, "GCATC":669969, "GCATG":539290, "GCACA":587070, "GCACT":669890, "GCACC":636156, "GCACG":267992, "GCAGA":1011073, "GCAGT":723342, "GCAGC":1003484, "GCAGG":1090450, "GCTAA":335681, "GCTAT":542887, "GCTAC":638772, "GCTAG":311586, "GCTTA":269973, "GCTTT":625692, "GCTTC":728140, "GCTTG":868919, "GCTCA":739300, "GCTCT":705641, "GCTCC":836362, "GCTCG":283161, "GCTGA":1376636, "GCTGT":1063585, "GCTGC":1161362, "GCTGG":1666869, "GCCAA":825597, "GCCAT":752510, "GCCAC":870996, "GCCAG":1145232, "GCCTA":439136, "GCCTT":706838, "GCCTC":1046288, "GCCTG":1387065, "GCCCA":1181319, "GCCCT":952908, "GCCCC":1019418, "GCCCG":575692, "GCCGA":605262, "GCCGT":304394, "GCCGC":675734, "GCCGG":550896, "GCGAA":183427, "GCGAT":172468, "GCGAC":226232, "GCGAG":366009, "GCGTA":77921, "GCGTT":154604, "GCGTC":294451, "GCGTG":523793, "GCGCA":260462, "GCGCT":554786, "GCGCC":509330, "GCGCG":443237, "GCGGA":338674, "GCGGT":303041, "GCGGC":564486, "GCGGG":657810, "GGAAA":1240444, "GGAAT":610634, "GGAAC":689351, "GGAAG":1403669, "GGATA":330736, "GGATT":575473, "GGATC":876960, "GGATG":826515, "GGACA":800017, "GGACT":676413, "GGACC":871886, "GGACG":378616, "GGAGA":1424757, "GGAGT":1026784, "GGAGC":1215102, "GGAGG":2267981, "GGTAA":274649, "GGTAT":293949, "GGTAC":253230, "GGTAG":296111, "GGTTA":253732, "GGTTT":543106, "GGTTC":478257, "GGTTG":623360, "GGTCA":664505, "GGTCT":563527, "GGTCC":493954, "GGTCG":325745, "GGTGA":1015145, "GGTGT":850745, "GGTGC":663911, "GGTGG":1461141, "GGCAA":671506, "GGCAT":731048, "GGCAC":598176, "GGCAG":1090578, "GGCTA":429210, "GGCTT":639130, "GGCTC":825930, "GGCTG":2116282, "GGCCA":1068854, "GGCCT":895193, "GGCCC":1179383, "GGCCG":645939, "GGCGA":309930, "GGCGT":321299, "GGCGC":548868, "GGCGG":698893, "GGGAA":963563, "GGGAT":599062, "GGGAC":813952, "GGGAG":1666385, "GGGTA":310567, "GGGTT":530126, "GGGTC":495123, "GGGTG":1120613, "GGGCA":809697, "GGGCT":1095750, "GGGCC":995372, "GGGCG":490954, "GGGGA":1056970, "GGGGT":699560, "GGGGC":882818, "GGGGG":6379758 }, "overrepresented_sequences": { } }, "command": "fastp -w 2 --in1 /scratch/tvdkreeke/GHE_RNAseq/GHE_exp2/results/fastq/46081_1_TK_RNA_5_D19_HSC_D2_A64_R1.fastq.gz --in2 /scratch/tvdkreeke/GHE_RNAseq/GHE_exp2/results/fastq/46081_1_TK_RNA_5_D19_HSC_D2_A64_R2.fastq.gz --out1 /scratch/tvdkreeke/GHE_RNAseq/GHE_exp2/results/fastq_trimmed/46081_1_TK_RNA_5_D19_HSC_D2_A64_R1_trimmed.fastq.gz --out2 /scratch/tvdkreeke/GHE_RNAseq/GHE_exp2/results/fastq_trimmed/46081_1_TK_RNA_5_D19_HSC_D2_A64_R2_trimmed.fastq.gz -h /scratch/tvdkreeke/GHE_RNAseq/GHE_exp2/results/qc/trimming/46081_1_TK_RNA_5_D19_HSC_D2_A64.fastp.html -j /scratch/tvdkreeke/GHE_RNAseq/GHE_exp2/results/qc/trimming/46081_1_TK_RNA_5_D19_HSC_D2_A64.fastp.json " }