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4
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1
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2 SUMMARISING RUN PARAMETERS
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3 ==========================
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4 Input filename: ./input_mate1
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5 Trimming mode: paired-end
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6 Trim Galore version: 0.3.7
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7 Quality Phred score cutoff: 20
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8 Quality encoding type selected: ASCII+33
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9 Adapter sequence: 'AGATCGGAAGAGC'
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10 Maximum trimming error rate: 0.1 (default)
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11 Minimum required adapter overlap (stringency): 1 bp
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12 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
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13
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14
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15 cutadapt version 1.1
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16 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_mate1
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17 Maximum error rate: 10.00%
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18 Processed reads: 100
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19 Trimmed reads: 20 ( 20.0%)
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20 Total basepairs: 24894 (0.0 Mbp)
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21 Trimmed basepairs: 26 (0.0 Mbp) (0.10% of total)
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22 Too short reads: 0 ( 0.0% of processed reads)
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23 Too long reads: 0 ( 0.0% of processed reads)
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24 Total time: 0.00 s
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25 Time per read: 0.03 ms
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26
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27 === Adapter 1 ===
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28
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29 Adapter 'AGATCGGAAGAGC', length 13, was trimmed 20 times.
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30
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31 Lengths of removed sequences
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32 length count expected
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33 1 16 25.0
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34 2 2 6.2
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35 3 2 1.6
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36
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37
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38 RUN STATISTICS FOR INPUT FILE: ./input_mate1
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39 =============================================
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40 100 sequences processed in total
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41
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42
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43 SUMMARISING RUN PARAMETERS
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44 ==========================
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45 Input filename: ./input_mate2
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46 Trimming mode: paired-end
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47 Trim Galore version: 0.3.7
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48 Quality Phred score cutoff: 20
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49 Quality encoding type selected: ASCII+33
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50 Adapter sequence: 'AGATCGGAAGAGC'
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51 Maximum trimming error rate: 0.1 (default)
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52 Minimum required adapter overlap (stringency): 1 bp
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53 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
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54
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55
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56 cutadapt version 1.1
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57 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_mate2
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58 Maximum error rate: 10.00%
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59 Processed reads: 100
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60 Trimmed reads: 24 ( 24.0%)
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61 Total basepairs: 24354 (0.0 Mbp)
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62 Trimmed basepairs: 36 (0.0 Mbp) (0.15% of total)
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63 Too short reads: 0 ( 0.0% of processed reads)
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64 Too long reads: 0 ( 0.0% of processed reads)
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65 Total time: 0.01 s
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66 Time per read: 0.10 ms
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67
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68 === Adapter 1 ===
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69
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70 Adapter 'AGATCGGAAGAGC', length 13, was trimmed 24 times.
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71
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72 Lengths of removed sequences
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73 length count expected
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74 1 15 25.0
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75 2 7 6.2
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76 3 1 1.6
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77 4 1 0.4
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78
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79
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80 RUN STATISTICS FOR INPUT FILE: ./input_mate2
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81 =============================================
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82 100 sequences processed in total
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83
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84 Total number of sequences analysed for the sequence pair length validation: 100
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85
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86 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 1 (1.00%)
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