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Fragment DNA 3 Fragment the DNA using the following settings: Table 5 Covaris S220 Settings Setting 350 bp Insert 550 bp Insert Duty factor 5% Peak Incident Power 175 W Cycles per burst Duration 200 50 seconds Mode 25 seconds Frequency sweeping Temperature 5.5° to 6°C NOTE The Covaris M220 settings are optimized for use with the Covaris microTUBE AFA Fiber Pre-Slit Snap-Cap 6x16mm. Table 6 Covaris M220 Settings Setting 350 bp Insert 550 bp Insert Duty factor 20% Peak Incident Power 50 W Cycles per burst Duration 200 65 seconds 45 seconds Temperature 20°C Table 7 Covaris S2 and E210 Settings Setting 350 bp Insert Duty cycle Intensity 10% 5.0 2.0 Cycles per burst 200 Duration Mode Displayed Power Temperature 550 bp Insert 45 seconds Frequency sweeping S2—23 W S2—9 W E210—14 W E210—7 W 5.5° to 6°C 4 Centrifuge the plate at 280 × g for 5 seconds. 5 Transfer 50 µl of fragmented DNA from each Covaris tube in the CFP plate to the corresponding well of the new 0.3 ml PCR plate labeled with the CSP barcode, using a single channel pipette. TruSeq DNA PCR-Free Library Prep Guide 13
