Starting /dee2/code/volunteer_pipeline.sh SRR21853439 current disk space = 1550519586816 free memory = 1598590312 SRR21853439 SRAfilesize 17e210b2e863b663e9d71a2fbf56005a SRR21853439.sra SRR21853439.sra file validated SRR21853439 is single end SRR21853439 is conventional basespace SRR21853439 read1 length is 36-101 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR21853439_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 36-101 %GC 53 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 35.0885 37.0 37.0 37.0 25.0 37.0 2 35.12225 37.0 37.0 37.0 25.0 37.0 3 35.446 37.0 37.0 37.0 37.0 37.0 4 35.7065 37.0 37.0 37.0 37.0 37.0 5 35.761 37.0 37.0 37.0 37.0 37.0 6 35.874 37.0 37.0 37.0 37.0 37.0 7 35.6115 37.0 37.0 37.0 37.0 37.0 8 35.7865 37.0 37.0 37.0 37.0 37.0 9 35.767 37.0 37.0 37.0 37.0 37.0 10-11 35.91375 37.0 37.0 37.0 37.0 37.0 12-13 35.79075 37.0 37.0 37.0 37.0 37.0 14-15 35.828 37.0 37.0 37.0 37.0 37.0 16-17 35.792500000000004 37.0 37.0 37.0 37.0 37.0 18-19 35.8195 37.0 37.0 37.0 37.0 37.0 20-21 35.7265 37.0 37.0 37.0 37.0 37.0 22-23 35.82575 37.0 37.0 37.0 37.0 37.0 24-25 35.81325 37.0 37.0 37.0 37.0 37.0 26-27 35.622 37.0 37.0 37.0 37.0 37.0 28-29 35.659000000000006 37.0 37.0 37.0 37.0 37.0 30-31 35.6365 37.0 37.0 37.0 37.0 37.0 32-33 35.58475 37.0 37.0 37.0 37.0 37.0 34-35 35.5815 37.0 37.0 37.0 37.0 37.0 36-37 35.60758614653663 37.0 37.0 37.0 37.0 37.0 38-39 35.550137534383595 37.0 37.0 37.0 37.0 37.0 40-41 35.55263815953988 37.0 37.0 37.0 37.0 37.0 42-43 35.550137534383595 37.0 37.0 37.0 37.0 37.0 44-45 35.413103275818955 37.0 37.0 37.0 37.0 37.0 46-47 35.5138784696174 37.0 37.0 37.0 37.0 37.0 48-49 35.47261815453864 37.0 37.0 37.0 37.0 37.0 50-51 35.48037009252313 37.0 37.0 37.0 37.0 37.0 52-53 35.448112028007 37.0 37.0 37.0 37.0 37.0 54-55 35.53063265816454 37.0 37.0 37.0 37.0 37.0 56-57 35.41710427606901 37.0 37.0 37.0 37.0 37.0 58-59 35.38984746186547 37.0 37.0 37.0 37.0 37.0 60-61 35.43435858964742 37.0 37.0 37.0 37.0 37.0 62-63 35.41185296324081 37.0 37.0 37.0 37.0 37.0 64-65 35.41410352588147 37.0 37.0 37.0 37.0 37.0 66-67 35.38734683670918 37.0 37.0 37.0 31.0 37.0 68-69 35.38084521130283 37.0 37.0 37.0 37.0 37.0 70-71 35.27581895473868 37.0 37.0 37.0 37.0 37.0 72-73 35.30557639409852 37.0 37.0 37.0 37.0 37.0 74-75 35.3633408352088 37.0 37.0 37.0 37.0 37.0 76-77 35.24608284387255 37.0 37.0 37.0 31.0 37.0 78-79 35.3471735867934 37.0 37.0 37.0 31.0 37.0 80-81 35.25212606303152 37.0 37.0 37.0 31.0 37.0 82-83 35.326413206603306 37.0 37.0 37.0 37.0 37.0 84-85 35.201921549009796 37.0 37.0 37.0 25.0 37.0 86-87 35.29787234042553 37.0 37.0 37.0 37.0 37.0 88-89 35.374217772215275 37.0 37.0 37.0 37.0 37.0 90-91 35.36049493514364 37.0 37.0 37.0 37.0 37.0 92-93 35.34501752628944 37.0 37.0 37.0 37.0 37.0 94-95 35.21209970477881 37.0 37.0 37.0 25.0 37.0 96-97 35.234192899053895 37.0 37.0 37.0 31.0 37.0 98-99 35.335930547534446 37.0 37.0 37.0 37.0 37.0 100-101 35.18805194805195 37.0 37.0 37.0 31.0 37.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10-11 0.0 1101 12-13 0.0 1101 14-15 0.0 1101 16-17 0.0 1101 18-19 0.0 1101 20-21 0.0 1101 22-23 0.0 1101 24-25 0.0 1101 26-27 0.0 1101 28-29 0.0 1101 30-31 0.0 1101 32-33 0.0 1101 34-35 0.0 1101 36-37 0.0 1101 38-39 0.0 1101 40-41 0.0 1101 42-43 0.0 1101 44-45 0.0 1101 46-47 0.0 1101 48-49 0.0 1101 50-51 0.0 1101 52-53 0.0 1101 54-55 0.0 1101 56-57 0.0 1101 58-59 0.0 1101 60-61 0.0 1101 62-63 0.0 1101 64-65 0.0 1101 66-67 0.0 1101 68-69 0.0 1101 70-71 0.0 1101 72-73 0.0 1101 74-75 0.0 1101 76-77 0.0 1101 78-79 0.0 1101 80-81 0.0 1101 82-83 0.0 1101 84-85 0.0 1101 86-87 0.0 1101 88-89 0.0 1101 90-91 0.0 1101 92-93 0.0 1101 94-95 0.0 1101 96-97 0.0 1101 98-99 0.0 1101 100-101 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 18 1.0 19 0.0 20 0.0 21 1.0 22 0.0 23 5.0 24 3.0 25 11.0 26 15.0 27 30.0 28 34.0 29 53.0 30 85.0 31 107.0 32 137.0 33 177.0 34 281.0 35 520.0 36 2052.0 37 488.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 29.925 12.525 16.900000000000002 40.65 2 26.036692636340792 19.95476250314149 28.600150791656194 25.408394068861522 3 28.625 22.175 20.974999999999998 28.225 4 28.175 29.549999999999997 17.424999999999997 24.85 5 28.299999999999997 29.549999999999997 19.325 22.825 6 22.8 32.375 20.474999999999998 24.349999999999998 7 20.4 14.674999999999999 37.1 27.825 8 23.400000000000002 19.25 25.650000000000002 31.7 9 23.9 19.675 26.025 30.4 10-11 27.3625 27.0625 18.2875 27.287499999999998 12-13 24.6875 20.7125 25.0625 29.5375 14-15 25.275 23.849999999999998 23.375 27.500000000000004 16-17 26.224999999999998 23.674999999999997 23.175 26.924999999999997 18-19 26.087500000000002 23.2875 24.224999999999998 26.400000000000002 20-21 26.0 23.5875 23.4375 26.974999999999998 22-23 26.125 24.474999999999998 22.575 26.825 24-25 26.650000000000002 23.8625 23.525 25.9625 26-27 25.687500000000004 23.6375 23.8125 26.8625 28-29 25.087500000000002 23.599999999999998 23.6375 27.675 30-31 25.9625 23.150000000000002 23.4875 27.400000000000002 32-33 25.7125 24.375 22.8625 27.05 34-35 26.825 23.8125 23.275000000000002 26.087500000000002 36-37 25.690711338917367 24.315539442430303 23.35291911488936 26.64083010376297 38-39 25.85646411602901 24.60615153788447 22.843210802700675 26.694173543385848 40-41 26.406601650412604 24.50612653163291 22.48062015503876 26.60665166291573 42-43 26.70667666916729 23.80595148787197 23.355838959739934 26.131532883220803 44-45 25.63140785196299 23.643410852713178 23.10577644411103 27.619404851212803 46-47 26.944236059014752 22.680670167541887 23.48087021755439 26.894223555888974 48-49 24.33108277069267 24.10602650662666 24.36859214803701 27.19429857464366 50-51 25.131282820705174 23.48087021755439 23.48087021755439 27.906976744186046 52-53 26.094023505876468 24.93123280820205 22.593148287071767 26.38159539884971 54-55 26.881720430107524 23.305826456614152 22.83070767691923 26.981745436359088 56-57 25.731432858214554 23.43085771442861 23.118279569892472 27.719429857464366 58-59 25.64391097774444 23.305826456614152 23.305826456614152 27.74443610902726 60-61 27.294323580895224 23.543385846461614 22.355588897224308 26.806701675418854 62-63 27.25681420355089 23.418354588647162 22.88072018004501 26.44411102775694 64-65 26.669167291822955 23.718429607401852 22.380595148787197 27.231807951987996 66-67 26.156539134783696 22.680670167541887 23.943485871467868 27.219304826206553 68-69 26.85671417854464 23.330832708177045 22.80570142535634 27.00675168792198 70-71 27.53188297074269 22.943235808952238 22.518129532383096 27.00675168792198 72-73 26.65666416604151 23.618404601150285 22.218054513628406 27.506876719179797 74-75 27.04426106526632 23.268317079269817 23.218304576144035 26.469117279319832 76-77 27.297736651244215 22.05827185194448 23.296236088533202 27.3477554082781 78-79 26.138069034517258 22.936468234117058 22.63631815907954 28.289144572286144 80-81 27.126063031515756 24.174587293646823 22.39869934967484 26.300650325162582 82-83 26.738369184592298 23.13656828414207 23.024012006003 27.101050525262632 84-85 26.423120230201423 23.80833229075441 21.844113599399474 27.92443387964469 86-87 25.832290362953692 23.62953692115144 23.46683354192741 27.071339173967456 88-89 26.90863579474343 23.178973717146434 23.166458072590736 26.7459324155194 90-91 27.275003129302792 23.08173738890975 23.03166854424834 26.611590937539116 92-93 26.89033550325488 23.5978968452679 22.621432148222333 26.89033550325488 94-95 26.8436208839364 22.524101665205958 24.01402278702892 26.618254663828722 96-97 25.858611180747054 23.013286537979443 23.84056154424668 27.287540737026823 98-99 27.382159148504815 22.415103902686266 23.035985808413585 27.166751140395334 100-101 27.104851330203445 10.641627543035993 28.46635367762128 33.78716744913928 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.5 2 0.5 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.5 22 1.0 23 1.0 24 0.5 25 0.5 26 1.0 27 1.0 28 3.5 29 6.5 30 7.5 31 6.0 32 6.0 33 7.0 34 10.0 35 23.0 36 34.0 37 41.0 38 36.0 39 32.0 40 48.0 41 63.0 42 82.5 43 105.5 44 107.0 45 118.0 46 148.5 47 142.5 48 144.5 49 163.0 50 156.0 51 163.5 52 174.0 53 175.5 54 170.5 55 177.5 56 190.5 57 167.0 58 137.0 59 127.5 60 116.5 61 95.0 62 84.0 63 82.0 64 75.5 65 65.0 66 54.0 67 55.0 68 67.0 69 61.5 70 48.0 71 43.5 72 38.0 73 32.5 74 28.0 75 25.0 76 17.5 77 13.0 78 13.5 79 8.0 80 3.0 81 1.5 82 1.5 83 1.0 84 0.0 85 0.5 86 0.5 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.525 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 94-95 0.0 96-97 0.0 98-99 0.0 100-101 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 36-37 1.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0 70-71 0.0 72-73 0.0 74-75 0.0 76-77 1.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 3.0 86-87 0.0 88-89 0.0 90-91 1.0 92-93 0.0 94-95 1.0 96-97 17.0 98-99 336.0 100-101 3640.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 85.82499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 87.09583454704341 74.75 2 10.544713078939703 18.099999999999998 3 1.602097290999126 4.125 4 0.40780658316341395 1.4000000000000001 5 0.2621613748907661 1.125 6 0.05825808330905913 0.3 7 0.0 0.0 8 0.029129041654529564 0.2 9 0.0 0.0 >10 0.0 0.0 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAA 8 0.2 No Hit CGTCTTCGAGCCCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGC 6 0.15 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACATTCAGAAATCTCGTAT 6 0.15 TruSeq Adapter, Index 13 (97% over 38bp) CCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAAT 5 0.125 No Hit GAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAAAGGCGTAACGATCT 5 0.125 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 5 0.125 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 5 0.125 No Hit GCGAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAAAGGCGTAACGAT 5 0.125 No Hit CCGGAATCGAACCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCC 5 0.125 No Hit CAAACCCCGACTTCTGGGAGGGGCGCATTTATTAGATAAAAGGCTGACGC 5 0.125 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACATTCAGAAATCGCGTAT 5 0.125 TruSeq Adapter, Index 13 (97% over 38bp) GCGGTTATGAGTACGACCGGGCGTGAACGGTACTCGGTCCTCCGGATTTT 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0125 0.0 0.0 0.0 0.0 48-49 0.025 0.0 0.0 0.0 0.0 50-51 0.025 0.0 0.0 0.0 0.0 52-53 0.025 0.0 0.0 0.0 0.0 54-55 0.025 0.0 0.0 0.0 0.0 56-57 0.025 0.0 0.0 0.0 0.0 58-59 0.025 0.0 0.0 0.0 0.0 60-61 0.025 0.0 0.0 0.0 0.0 62-63 0.025 0.0 0.0 0.0 0.0 64-65 0.025 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.025 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.025 0.0 0.0 0.0 0.0 76-77 0.025 0.0 0.0 0.0 0.0 78-79 0.025 0.0 0.0 0.0 0.0 80-81 0.025 0.0 0.0 0.0 0.0 82-83 0.025 0.0 0.0 0.0 0.0 84-85 0.025 0.0 0.0 0.0 0.0 86-87 0.025 0.0 0.0 0.0 0.0 88-89 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368336 spots for SRR21853439.sra Written 368336 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra Read 368325 spots for SRR21853439.sra Written 368325 spots for SRR21853439.sra SRR ids: ['SRR21853439.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_bij72740 SRR21853439.sra spots: 7366511 blocks: [[1, 368325], [368326, 736650], [736651, 1104975], [1104976, 1473300], [1473301, 1841625], [1841626, 2209950], [2209951, 2578275], [2578276, 2946600], [2946601, 3314925], [3314926, 3683250], [3683251, 4051575], [4051576, 4419900], [4419901, 4788225], [4788226, 5156550], [5156551, 5524875], [5524876, 5893200], [5893201, 6261525], [6261526, 6629850], [6629851, 6998175], [6998176, 7366511]] SRR21853439 file size 1980150 SRR21853439 completed basic pipeline successfully skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -q 10 -k inf -t 20 -o SRR21853439 SRR21853439_1.fastq Input file: SRR21853439_1.fastq trimmed: SRR21853439-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- end quality threshold (-q): 10 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Fri Dec 6 14:50:53 2024 >> started Fri Dec 6 14:50:56 2024 >> done (3.748s) 7366511 reads processed; of these: 30 ( 0.00%) short reads filtered out after trimming by size control 25424 ( 0.35%) empty reads filtered out after trimming by size control 7341057 (99.65%) reads available; of these: 218 ( 0.00%) trimmed reads available after processing 7340839 (100.00%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 19 1 0.00% 20 1 0.00% 21 1 0.00% 22 3 0.00% 23 7 0.00% 24 1 0.00% 25 2 0.00% 26 3 0.00% 27 1 0.00% 28 3 0.00% 29 4 0.00% 30 4 0.00% 31 3 0.00% 32 3 0.00% 33 6 0.00% 34 1 0.00% 35 82 0.00% 36 79 0.00% 37 87 0.00% 38 86 0.00% 39 96 0.00% 40 90 0.00% 41 66 0.00% 42 96 0.00% 43 81 0.00% 44 100 0.00% 45 93 0.00% 46 86 0.00% 47 99 0.00% 48 82 0.00% 49 100 0.00% 50 82 0.00% 51 111 0.00% 52 106 0.00% 53 111 0.00% 54 106 0.00% 55 105 0.00% 56 109 0.00% 57 104 0.00% 58 102 0.00% 59 122 0.00% 60 113 0.00% 61 134 0.00% 62 131 0.00% 63 125 0.00% 64 156 0.00% 65 138 0.00% 66 147 0.00% 67 123 0.00% 68 147 0.00% 69 147 0.00% 70 146 0.00% 71 171 0.00% 72 163 0.00% 73 164 0.00% 74 166 0.00% 75 162 0.00% 76 185 0.00% 77 195 0.00% 78 185 0.00% 79 172 0.00% 80 182 0.00% 81 205 0.00% 82 223 0.00% 83 234 0.00% 84 251 0.00% 85 256 0.00% 86 270 0.00% 87 238 0.00% 88 268 0.00% 89 297 0.00% 90 318 0.00% 91 1265 0.02% 92 490 0.01% 93 619 0.01% 94 527 0.01% 95 1368 0.02% 96 7382 0.10% 97 31267 0.43% 98 112320 1.53% 99 484076 6.59% 100 1600097 21.80% 101 5093409 69.38% 7341057 reads passed initial QC criterion=sequence-density sequence-density=0.76 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=25 prefix-density=0.76 prefix-fanout=2.0 sequence=TTCGCTATCGGTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=31 fanout-score=13.69 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=1.4 sequence=AGAAGGGGTGCCCCCTCACAAAAGGGGGTCGCAGTGACCAGGCCCGGGCGACTGTTTACCAAAAACACAGGTCTCCGCAAAGTCGTAAGACCATGTATGGGGGCTGACGCCTGCCCAGTGCCGGAAGGTCAAGGAAGTTGGTGAACTGATGACAGGGAAGCCGGCGACCGAAGCCCCGGTGAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCGAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAAAGGCGTAACGATCTGGGCACTGTCTCGGAGAGAGGCTCGGTGAAATAGACATGTCTGTGAAGATGCGGACTACCTGCACCTGGACAGAAAGACCCTATGAAGCTTTACTGTTCCCTGGGATTGGCTTTGGGCCTTTCCTGCGCAGCTTAGGTGGAAGGCGAAGAAGGCCCCCTTCCGGGGGGGCCCGAGCCATCAGTGAGATACCACTCTGGAAGAGCTCGGATTCTAACCTTGTGTCAGACCCGCGGGCCAAGGGACA Started job on | Dec 06 14:51:13 Started mapping on | Dec 06 14:51:14 Finished on | Dec 06 14:51:30 Mapping speed, Million of reads per hour | 1651.74 Number of input reads | 7341057 Average input read length | 100 UNIQUE READS: Uniquely mapped reads number | 3920414 Uniquely mapped reads % | 53.40% Average mapped length | 100.23 Number of splices: Total | 1272515 Number of splices: Annotated (sjdb) | 1208466 Number of splices: GT/AG | 1253434 Number of splices: GC/AG | 15513 Number of splices: AT/AC | 781 Number of splices: Non-canonical | 2787 Mismatch rate per base, % | 0.31% Deletion rate per base | 0.00% Deletion average length | 1.78 Insertion rate per base | 0.00% Insertion average length | 1.55 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1417523 % of reads mapped to multiple loci | 19.31% Number of reads mapped to too many loci | 1672828 % of reads mapped to too many loci | 22.79% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.10% % of reads unmapped: other | 3.40% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 2003120 2003120 2003120 N_multimapping 1417523 1417523 1417523 N_noFeature 286649 2081533 2076142 N_ambiguous 58536 5075 4513 UnstrandedReadsAssigned:3575229 PositiveStrandReadsAssigned:1833806 NegativeStrandReadsAssigned:1839759 Dataset is classified unstranded MeadianReadLen=101 20thPercentileLength=100 echo kmer=95 SRR21853439 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [index] k-mer length: 31 [index] number of targets: 52,972 [index] number of k-mers: 66,720,672 [index] number of equivalence classes: 111,837 [quant] running in single-end mode [quant] will process file 1: SRR21853439-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 7,341,057 reads, 4,220,719 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,133 rounds 52973 SRR21853439.ke.tsv 35125 SRR21853439.se.tsv 88098 total ==> SRR21853439.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 9.55844 3.36247 PNS24249 1928 1829 29.8915 5.43298 PNS24246 1044 945 9.55844 3.36247 PNS24248 1044 945 9.55844 3.36247 PNS24244 1471 1372 3.43317 0.83185 PNS24243 293 194 1 1.71357 KQK14069 1603 1504 238.495 52.7152 KQK14071 474 375 39.9124 35.3819 ==> SRR21853439.se.tsv <== BRADI_1g14170v3 293 BRADI_1g53295v3 20 BRADI_1g59795v3 46 BRADI_1g07683v3 0 BRADI_1g00485v3 14 BRADI_1g20270v3 440 BRADI_1g74790v3 54 BRADI_1g09890v3 3 BRADI_1g77505v3 37 BRADI_1g48960v3 0 SRR21853439 completed mapping pipeline successfully