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Contents:

PCR primers for off-targets of CGCGCCGGAAGTGGCCAGGG CGG

In the table below, Illumina Nextera Handle sequences have been added and highlighted in bold. Primers for the on-target have been added for convenience. The table below is sorted by the CFD off-target score. Sites with very low CFD scores < 0.02 are unlikely to be cleaved, see our study Haeussler et al. 2016, Figure 2.

In the protocol by Matthew Canver, Harvard, two PCRs are run: one PCR to amplify the potential off-target, then a second PCR to extend the handles with Illumina barcodes. Please click here to download the protocol. Alternatively, you can have a look at Fu et al, 2014.

NamePrimer Sequence Tm CFD Score
ontarget_mm0__chr7 5.53 Mbp_chr7_5529703_F TCGTCGGCAGCGTCTGGTGAGCTGCGAGAATAGC 60.1 1.00
ontarget_mm0__chr7 5.53 Mbp_chr7_5529703_R GTCTCGTGGGCTCGGCGGCTTCCTTTGTCCCCAAT 60.6 1.00
mm4__chr1 3.40 Mbp_chr1_3397632_F TCGTCGGCAGCGTCGGGTTCGAGCCTAACTGCTT 60.0 0.88
mm4__chr1 3.40 Mbp_chr1_3397632_R GTCTCGTGGGCTCGGGGAAAACTCAGCCTCCCTCC 60.0 0.88
mm3__chr16 18.50 Mbp_chr16_18499296_F Primer3: not found at this Tm N.d. 0.64
mm3__chr16 18.50 Mbp_chr16_18499296_R Primer3: not found at this Tm N.d. 0.64
mm3__chr16 18.42 Mbp_chr16_18416697_F Primer3: not found at this Tm N.d. 0.64
mm3__chr16 18.42 Mbp_chr16_18416697_R Primer3: not found at this Tm N.d. 0.64
mm3__chr16 16.30 Mbp_chr16_16295415_F Primer3: not found at this Tm N.d. 0.64
mm3__chr16 16.30 Mbp_chr16_16295415_R Primer3: not found at this Tm N.d. 0.64
mm3__chr16 14.90 Mbp_chr16_14896761_F Primer3: not found at this Tm N.d. 0.64
mm3__chr16 14.90 Mbp_chr16_14896761_R Primer3: not found at this Tm N.d. 0.64
mm4__chr15 75.29 Mbp_chr15_75294384_F TCGTCGGCAGCGTCAGTGAGCCTGGACAACAACG 60.5 0.60
mm4__chr15 75.29 Mbp_chr15_75294384_R GTCTCGTGGGCTCGGATGACAGGAGACAGCTGCAC 60.0 0.60
mm4__chr16 27.81 Mbp_chr16_27811503_F TCGTCGGCAGCGTCTCCTCATCCCGGAACACCA 60.2 0.51
mm4__chr16 27.81 Mbp_chr16_27811503_R GTCTCGTGGGCTCGGGAGGATGCTGGAAGCCCTTT 60.0 0.51
mm4__chr15 90.30 Mbp_chr15_90295595_F TCGTCGGCAGCGTCGATCCCCTCCTCCCTCTCTC 59.8 0.48
mm4__chr15 90.30 Mbp_chr15_90295595_R GTCTCGTGGGCTCGGACAGGAAGCAGCTGCATGAT 60.0 0.48
mm4__chr11 32.53 Mbp_chr11_32530489_F Primer3: not found at this Tm N.d. 0.46
mm4__chr11 32.53 Mbp_chr11_32530489_R Primer3: not found at this Tm N.d. 0.46
mm4__chr3 37.48 Mbp_chr3_37478118_F Primer3: not found at this Tm N.d. 0.45
mm4__chr3 37.48 Mbp_chr3_37478118_R Primer3: not found at this Tm N.d. 0.45
mm4__chr6 33.81 Mbp_chr6_33808068_F Primer3: not found at this Tm N.d. 0.44
mm4__chr6 33.81 Mbp_chr6_33808068_R Primer3: not found at this Tm N.d. 0.44
mm4__chr6 163.83 Mbp_chr6_163834699_F TCGTCGGCAGCGTCAGCAAAACCCACACCCTCTC 60.1 0.43
mm4__chr6 163.83 Mbp_chr6_163834699_R GTCTCGTGGGCTCGGGGGGTCTTTCCTGTCCTGC 60.0 0.43
mm4__chr1 21.87 Mbp_chr1_21872833_F Primer3: not found at this Tm N.d. 0.40
mm4__chr1 21.87 Mbp_chr1_21872833_R Primer3: not found at this Tm N.d. 0.40
mm3__chr15 42.14 Mbp_chr15_42142749_F Primer3: not found at this Tm N.d. 0.36
mm3__chr15 42.14 Mbp_chr15_42142749_R Primer3: not found at this Tm N.d. 0.36
mm4__chr19 6.22 Mbp_chr19_6224456_F TCGTCGGCAGCGTCGAGAGACTGCAATGCCACCT 60.0 0.35
mm4__chr19 6.22 Mbp_chr19_6224456_R GTCTCGTGGGCTCGGCTCTGACGTGCCTTTGGAGT 59.9 0.35
mm4__chr10 28.11 Mbp_chr10_28113980_F TCGTCGGCAGCGTCTTAGCATGACCTCCCATGGC 59.8 0.31
mm4__chr10 28.11 Mbp_chr10_28113980_R GTCTCGTGGGCTCGGACACTGGAGAGAGGAGCTGG 60.6 0.31
mm4__chr19 16.37 Mbp_chr19_16371662_F TCGTCGGCAGCGTCAAGGTGACTGGCTGGTTAGC 59.9 0.29
mm4__chr19 16.37 Mbp_chr19_16371662_R GTCTCGTGGGCTCGGCGATAGTGGGATCCTGCGAC 60.0 0.29
mm4__chr14 70.03 Mbp_chr14_70032509_F TCGTCGGCAGCGTCAAGGACATCTGAGGTGCTGC 60.0 0.27
mm4__chr14 70.03 Mbp_chr14_70032509_R GTCTCGTGGGCTCGGGAGTCCCCTCTCTAGGTGCA 60.0 0.27
mm4__chr7 1.40 Mbp_chr7_1395172_F Primer3: not found at this Tm N.d. 0.27
mm4__chr7 1.40 Mbp_chr7_1395172_R Primer3: not found at this Tm N.d. 0.27
mm4__chr1 1.15 Mbp_chr1_1150628_F TCGTCGGCAGCGTCCATTTGGGAGGAGGCCAGAC 60.3 0.26
mm4__chr1 1.15 Mbp_chr1_1150628_R GTCTCGTGGGCTCGGCGTGAAAGCTACCAGGACGG 60.7 0.26
mm4__chr11 2.41 Mbp_chr11_2409231_F TCGTCGGCAGCGTCTGAGTGTCTGTGTGTGCACT 59.4 0.25
mm4__chr11 2.41 Mbp_chr11_2409231_R GTCTCGTGGGCTCGGCATCAGTCTGCCCAGGAACA 59.6 0.25
mm4__chr11 24.87 Mbp_chr11_24871488_F Primer3: not found at this Tm N.d. 0.23
mm4__chr11 24.87 Mbp_chr11_24871488_R Primer3: not found at this Tm N.d. 0.23
mm4__chr16 57.67 Mbp_chr16_57667615_F TCGTCGGCAGCGTCAGGGTGACAGACAGTGCATG 59.9 0.23
mm4__chr16 57.67 Mbp_chr16_57667615_R GTCTCGTGGGCTCGGTGGATAACAGGACGGACCCA 60.2 0.23
mm4__chr6 6.92 Mbp_chr6_6920278_F Primer3: not found at this Tm N.d. 0.22
mm4__chr6 6.92 Mbp_chr6_6920278_R Primer3: not found at this Tm N.d. 0.22
mm4__chr1 155.24 Mbp_chr1_155235675_F TCGTCGGCAGCGTCGGCCTGGTATGGAATGGGG 59.8 0.22
mm4__chr1 155.24 Mbp_chr1_155235675_R GTCTCGTGGGCTCGGTGGGTGCGTAACTTTGTCGA 59.8 0.22
mm4__chr1 155.22 Mbp_chr1_155215048_F TCGTCGGCAGCGTCGGCCTGGTATGGAATGGGG 59.8 0.22
mm4__chr1 155.22 Mbp_chr1_155215048_R GTCTCGTGGGCTCGGAGACATCACCAAGCACACGT 59.8 0.22
mm4__chr4 152.54 Mbp_chr4_152536215_F Primer3: not found at this Tm N.d. 0.22
mm4__chr4 152.54 Mbp_chr4_152536215_R Primer3: not found at this Tm N.d. 0.22
mm3__chr12 45.05 Mbp_chr12_45050714_F TCGTCGGCAGCGTCCAGCTTTAGGGGAACTGGGC 60.6 0.21
mm3__chr12 45.05 Mbp_chr12_45050714_R GTCTCGTGGGCTCGGGATCGAGAATTTGCTGCGGG 59.6 0.21
mm4__chr15 42.74 Mbp_chr15_42737141_F Primer3: not found at this Tm N.d. 0.21
mm4__chr15 42.74 Mbp_chr15_42737141_R Primer3: not found at this Tm N.d. 0.21
mm4__chr12 48.73 Mbp_chr12_48727450_F TCGTCGGCAGCGTCACCATGGTTACCAGGCACAG 59.9 0.20
mm4__chr12 48.73 Mbp_chr12_48727450_R GTCTCGTGGGCTCGGAGTTGAAGAAGGCCATCTCAGA 59.0 0.20
mm4__chr5 73.22 Mbp_chr5_73216153_F TCGTCGGCAGCGTCCTTTTCCTCCCTGCCCAAGT 59.8 0.18
mm4__chr5 73.22 Mbp_chr5_73216153_R GTCTCGTGGGCTCGGCCCATGCGGCCATAGGGG 62.6 0.18
mm4__chr21 46.11 Mbp_chr21_46112604_F TCGTCGGCAGCGTCATCAAGGTCATGGTGAGCCG 60.1 0.17
mm4__chr21 46.11 Mbp_chr21_46112604_R GTCTCGTGGGCTCGGCAGAGGGGTAAAGTGAGGCC 59.7 0.17
mm4__chr15 89.46 Mbp_chr15_89459708_F Primer3: not found at this Tm N.d. 0.17
mm4__chr15 89.46 Mbp_chr15_89459708_R Primer3: not found at this Tm N.d. 0.17
mm4__chr16 2.19 Mbp_chr16_2190772_F TCGTCGGCAGCGTCCGGCCCAATCTGTCTCTCAG 60.1 0.16
mm4__chr16 2.19 Mbp_chr16_2190772_R GTCTCGTGGGCTCGGCCCATTTCCGGGTGTTCCAG 60.9 0.16
mm4__chr3 168.10 Mbp_chr3_168095661_F TCGTCGGCAGCGTCCCAGATGCCTCCTGCCTTTT 60.3 0.16
mm4__chr3 168.10 Mbp_chr3_168095661_R GTCTCGTGGGCTCGGCAACAAAGTCGTGCAGTGGG 59.9 0.16
mm4__chr10 31.32 Mbp_chr10_31318841_F TCGTCGGCAGCGTCAATCAGCCAGATCCCTCCCT 60.0 0.15
mm4__chr10 31.32 Mbp_chr10_31318841_R GTCTCGTGGGCTCGGGCTGTCGGAGTTGGAAAGGT 60.2 0.15
mm4__chr4 173.17 Mbp_chr4_173169133_F Primer3: not found at this Tm N.d. 0.15
mm4__chr4 173.17 Mbp_chr4_173169133_R Primer3: not found at this Tm N.d. 0.15
mm4__chr20 63.24 Mbp_chr20_63235893_F TCGTCGGCAGCGTCGAGCATGTGACCCCAGAGG 59.7 0.14
mm4__chr20 63.24 Mbp_chr20_63235893_R GTCTCGTGGGCTCGGGACAGCAGGGATAGGCACAG 60.1 0.14
mm4__chr2 169.75 Mbp_chr2_169748204_F Primer3: not found at this Tm N.d. 0.14
mm4__chr2 169.75 Mbp_chr2_169748204_R Primer3: not found at this Tm N.d. 0.14
mm4__chr1 10.70 Mbp_chr1_10702725_F TCGTCGGCAGCGTCTCCAGGTTTGTGTCTGCCTC 59.8 0.14
mm4__chr1 10.70 Mbp_chr1_10702725_R GTCTCGTGGGCTCGGCAACAAGCCCCTTCTCCCAT 59.9 0.14
mm4__chr18 48.34 Mbp_chr18_48337318_F TCGTCGGCAGCGTCCCACCCCAGCCTACCATTTT 59.9 0.14
mm4__chr18 48.34 Mbp_chr18_48337318_R GTCTCGTGGGCTCGGCACAGCCTGTTCCCATGGAT 60.0 0.14
mm4__chr16 57.10 Mbp_chr16_57103557_F TCGTCGGCAGCGTCCAGGACATCCCACTGTGGTC 60.0 0.13
mm4__chr16 57.10 Mbp_chr16_57103557_R GTCTCGTGGGCTCGGGAAGGGGAGAAGAGCTGCTG 60.1 0.13
mm4__chr12 2.65 Mbp_chr12_2652584_F Primer3: not found at this Tm N.d. 0.13
mm4__chr12 2.65 Mbp_chr12_2652584_R Primer3: not found at this Tm N.d. 0.13
mm4__chr20 63.89 Mbp_chr20_63890189_F TCGTCGGCAGCGTCCACTGTGCTGTCCTTCCTAGG 60.0 0.13
mm4__chr20 63.89 Mbp_chr20_63890189_R GTCTCGTGGGCTCGGTCCTTCAACATTCTGATGGGCT 59.6 0.13
mm4__chr1 16.14 Mbp_chr1_16139300_F TCGTCGGCAGCGTCCCCTACAGGCAGGAAGCTG 59.7 0.12
mm4__chr1 16.14 Mbp_chr1_16139300_R GTCTCGTGGGCTCGGGTAGGGTTGTTGGAGGAGCTC 60.0 0.12
mm4__chr7 101.24 Mbp_chr7_101244997_F TCGTCGGCAGCGTCACAGACACCAGCTCGTTCAG 59.9 0.11
mm4__chr7 101.24 Mbp_chr7_101244997_R GTCTCGTGGGCTCGGCTGGGCCATGGAGACTGTG 60.0 0.11
mm4__chr6 170.03 Mbp_chr6_170027086_F Primer3: not found at this Tm N.d. 0.11
mm4__chr6 170.03 Mbp_chr6_170027086_R Primer3: not found at this Tm N.d. 0.11
mm4__chr8 42.33 Mbp_chr8_42331214_F Primer3: not found at this Tm N.d. 0.10
mm4__chr8 42.33 Mbp_chr8_42331214_R Primer3: not found at this Tm N.d. 0.10
mm3__chr8 143.82 Mbp_chr8_143818334_F TCGTCGGCAGCGTCAAGCCCTAGACACAGGGACA 60.1 0.10
mm3__chr8 143.82 Mbp_chr8_143818334_R GTCTCGTGGGCTCGGGACTCCGTCACCATGAAGCA 60.0 0.10
mm4__chr2 10.30 Mbp_chr2_10302496_F TCGTCGGCAGCGTCCAACTCGGCTCTTCCCCTTC 60.3 0.10
mm4__chr2 10.30 Mbp_chr2_10302496_R GTCTCGTGGGCTCGGCCTCTGGCCTGCTGGTATAG 59.3 0.10
mm4__chr18 45.48 Mbp_chr18_45479857_F TCGTCGGCAGCGTCCATTACCCACAGCAACAGGC 59.4 0.10
mm4__chr18 45.48 Mbp_chr18_45479857_R GTCTCGTGGGCTCGGTCACGTCTTGCAATGTTCCA 58.0 0.10
mm3__chr3 149.75 Mbp_chr3_149752481_F TCGTCGGCAGCGTCTGTCCTACGATTTCACCCGG 59.4 0.09
mm3__chr3 149.75 Mbp_chr3_149752481_R GTCTCGTGGGCTCGGCGTCCGAGTGTAACGCGTTA 60.4 0.09
mm4__chr1 203.15 Mbp_chr1_203151219_F TCGTCGGCAGCGTCTGAAGGGAGGTGGGAGGAAA 60.1 0.09
mm4__chr1 203.15 Mbp_chr1_203151219_R GTCTCGTGGGCTCGGGTCCTGGAGAAGTCACGCTC 60.1 0.09
mm4__chr15 101.01 Mbp_chr15_101014444_F TCGTCGGCAGCGTCACTTGGCAAGTAAGCAGGGG 60.2 0.09
mm4__chr15 101.01 Mbp_chr15_101014444_R GTCTCGTGGGCTCGGCCATTCAGAGGACCTGCTCG 60.1 0.09
mm4__chr7 99.14 Mbp_chr7_99144074_F Primer3: not found at this Tm N.d. 0.08
mm4__chr7 99.14 Mbp_chr7_99144074_R Primer3: not found at this Tm N.d. 0.08
mm4__chr17 47.70 Mbp_chr17_47699389_F TCGTCGGCAGCGTCGTGAGTGACCTGGAGCGG 59.7 0.08
mm4__chr17 47.70 Mbp_chr17_47699389_R GTCTCGTGGGCTCGGGTCTCCTGCAGCTGCTTCA 60.0 0.08
mm4__chr7 32.89 Mbp_chr7_32891586_F Primer3: not found at this Tm N.d. 0.07
mm4__chr7 32.89 Mbp_chr7_32891586_R Primer3: not found at this Tm N.d. 0.07
mm4__chr13 45.83 Mbp_chr13_45832048_F Primer3: not found at this Tm N.d. 0.07
mm4__chr13 45.83 Mbp_chr13_45832048_R Primer3: not found at this Tm N.d. 0.07
mm3__chr2 157.89 Mbp_chr2_157892225_F Primer3: not found at this Tm N.d. 0.07
mm3__chr2 157.89 Mbp_chr2_157892225_R Primer3: not found at this Tm N.d. 0.07
mm4__chr11 46.37 Mbp_chr11_46369544_F TCGTCGGCAGCGTCTGGTGGTCACTGCCATGTTT 60.1 0.07
mm4__chr11 46.37 Mbp_chr11_46369544_R GTCTCGTGGGCTCGGGAGGCCCATGCAGGAATCTT 60.1 0.07
mm4__chr1 230.80 Mbp_chr1_230795273_F TCGTCGGCAGCGTCGGTATGCGGATGAGGAGCTC 60.0 0.06
mm4__chr1 230.80 Mbp_chr1_230795273_R GTCTCGTGGGCTCGGGGAGGGTGACTGAAGATGCC 60.1 0.06
mm4__chr22 39.70 Mbp_chr22_39698243_F TCGTCGGCAGCGTCCTCATCAGGTCACAGGGCTG 60.1 0.06
mm4__chr22 39.70 Mbp_chr22_39698243_R GTCTCGTGGGCTCGGCATCACTGCAGGAGGAGGC 60.1 0.06
mm4__chr8 28.39 Mbp_chr8_28385672_F Primer3: not found at this Tm N.d. 0.06
mm4__chr8 28.39 Mbp_chr8_28385672_R Primer3: not found at this Tm N.d. 0.06
mm4__chr15 31.81 Mbp_chr15_31813010_F TCGTCGGCAGCGTCATGGATTCTCAAGGCCAGGC 60.1 0.05
mm4__chr15 31.81 Mbp_chr15_31813010_R GTCTCGTGGGCTCGGCGCATCAGGTGTCTTGCTTC 59.5 0.05
mm4__chr10 13.35 Mbp_chr10_13347320_F TCGTCGGCAGCGTCCCAACCCCGGACCTACCT 60.2 0.05
mm4__chr10 13.35 Mbp_chr10_13347320_R GTCTCGTGGGCTCGGGTGTCCCCGGGTTCCTTG 59.9 0.05
mm4__chrX 17.38 Mbp_chrX_17375401_F Primer3: not found at this Tm N.d. 0.05
mm4__chrX 17.38 Mbp_chrX_17375401_R Primer3: not found at this Tm N.d. 0.05
mm4__chr20 3.89 Mbp_chr20_3889779_F TCGTCGGCAGCGTCGTAAGTGTTCCGTGGGGCG 61.0 0.05
mm4__chr20 3.89 Mbp_chr20_3889779_R GTCTCGTGGGCTCGGCACCAACGAGGGACCACC 59.9 0.05
mm4__chr3 57.56 Mbp_chr3_57556032_F Primer3: not found at this Tm N.d. 0.05
mm4__chr3 57.56 Mbp_chr3_57556032_R Primer3: not found at this Tm N.d. 0.05
mm4__chr19 54.01 Mbp_chr19_54011840_F Primer3: not found at this Tm N.d. 0.04
mm4__chr19 54.01 Mbp_chr19_54011840_R Primer3: not found at this Tm N.d. 0.04
mm4__chr2 232.49 Mbp_chr2_232487661_F TCGTCGGCAGCGTCAGAGGACGCAGACAAAGCC 60.0 0.04
mm4__chr2 232.49 Mbp_chr2_232487661_R GTCTCGTGGGCTCGGGTAAGTGGCGCCCGAGTC 60.5 0.04
mm3__chr2 10.04 Mbp_chr2_10043880_F Primer3: not found at this Tm N.d. 0.04
mm3__chr2 10.04 Mbp_chr2_10043880_R Primer3: not found at this Tm N.d. 0.04
mm4__chr3 11.72 Mbp_chr3_11719828_F TCGTCGGCAGCGTCGGAGGGAGATAGGGGCGAG 60.6 0.03
mm4__chr3 11.72 Mbp_chr3_11719828_R GTCTCGTGGGCTCGGGACAAACCTCACTGCCCCA 59.8 0.03
mm4__chr6 87.72 Mbp_chr6_87718840_F TCGTCGGCAGCGTCGCACAACCTTCAGAGCTTGC 60.0 0.03
mm4__chr6 87.72 Mbp_chr6_87718840_R GTCTCGTGGGCTCGGGCAGCTAGCACATTTCTGGC 59.9 0.03
mm4__chr3 94.06 Mbp_chr3_94063190_F TCGTCGGCAGCGTCGACAATGCTGACCCAGGTGA 59.9 0.03
mm4__chr3 94.06 Mbp_chr3_94063190_R GTCTCGTGGGCTCGGGAGGGGACGAACAAAGGTGA 59.6 0.03
mm4__chr17 14.21 Mbp_chr17_14206924_F TCGTCGGCAGCGTCGGCTACTGCATGATGTCGGT 60.1 0.03
mm4__chr17 14.21 Mbp_chr17_14206924_R GTCTCGTGGGCTCGGTCCATGTGGTGATGTCCAGC 60.0 0.03
mm4__chr3 10.25 Mbp_chr3_10248661_F Primer3: not found at this Tm N.d. 0.03
mm4__chr3 10.25 Mbp_chr3_10248661_R Primer3: not found at this Tm N.d. 0.03
mm4__chr2 8.59 Mbp_chr2_8593935_F TCGTCGGCAGCGTCCTCCAACGTGACAAGAGGGG 60.3 0.03
mm4__chr2 8.59 Mbp_chr2_8593935_R GTCTCGTGGGCTCGGGAGGCATGAGGATCACCAGG 59.8 0.03
mm4__chr6 18.16 Mbp_chr6_18155318_F TCGTCGGCAGCGTCCGTACCTCGTTGCACAGACT 60.0 0.03
mm4__chr6 18.16 Mbp_chr6_18155318_R GTCTCGTGGGCTCGGCGACAGGACTAGGGATGGGT 60.3 0.03
mm4__chr1 205.81 Mbp_chr1_205813030_F TCGTCGGCAGCGTCTCGCTACATTTCGCTTCTGC 59.0 0.02
mm4__chr1 205.81 Mbp_chr1_205813030_R GTCTCGTGGGCTCGGGGGCCCGAAGCGATATATCC 60.1 0.02
mm4__chr2 3.31 Mbp_chr2_3307553_F Primer3: not found at this Tm N.d. 0.02
mm4__chr2 3.31 Mbp_chr2_3307553_R Primer3: not found at this Tm N.d. 0.02
mm4__chr22 38.14 Mbp_chr22_38143529_F TCGTCGGCAGCGTCCTCGTACAAGAGATGGGCCC 59.8 0.02
mm4__chr22 38.14 Mbp_chr22_38143529_R GTCTCGTGGGCTCGGTCTGTGACCCTTTCCTGTGC 59.8 0.02
mm4__chr9 128.20 Mbp_chr9_128203687_F Primer3: not found at this Tm N.d. 0.02
mm4__chr9 128.20 Mbp_chr9_128203687_R Primer3: not found at this Tm N.d. 0.02
mm3__chr19 22.89 Mbp_chr19_22893824_F TCGTCGGCAGCGTCCTTTCCGCGGGCAGAGTG 61.1 0.02
mm3__chr19 22.89 Mbp_chr19_22893824_R GTCTCGTGGGCTCGGGTAACCAGAGAGGCAGGACG 59.8 0.02
mm4__chr17 74.92 Mbp_chr17_74923073_F TCGTCGGCAGCGTCCGGTGGTACTGGTCGTTCAT 59.7 0.02
mm4__chr17 74.92 Mbp_chr17_74923073_R GTCTCGTGGGCTCGGCCTCCAACCTCATGCCTCAG 60.1 0.02
mm4__chr12 49.23 Mbp_chr12_49234645_F TCGTCGGCAGCGTCCTCTGTCCCCGGTGACCA 60.6 0.02
mm4__chr12 49.23 Mbp_chr12_49234645_R GTCTCGTGGGCTCGGAAGGCCGCTTCTAAACAGCA 60.2 0.02
mm4__chr1 153.78 Mbp_chr1_153777738_F Primer3: not found at this Tm N.d. 0.02
mm4__chr1 153.78 Mbp_chr1_153777738_R Primer3: not found at this Tm N.d. 0.02
mm4__chr17 75.73 Mbp_chr17_75731006_F TCGTCGGCAGCGTCTCAATGTGAGGGCAGCTCAG 60.0 0.02
mm4__chr17 75.73 Mbp_chr17_75731006_R GTCTCGTGGGCTCGGCCCAGACCCATTTCTCCACC 60.0 0.02
mm4__chr9 129.46 Mbp_chr9_129459550_F Primer3: not found at this Tm N.d. 0.02
mm4__chr9 129.46 Mbp_chr9_129459550_R Primer3: not found at this Tm N.d. 0.02
mm4__chr2 29.92 Mbp_chr2_29920055_F Primer3: not found at this Tm N.d. 0.02
mm4__chr2 29.92 Mbp_chr2_29920055_R Primer3: not found at this Tm N.d. 0.02
mm4__chr1 47.43 Mbp_chr1_47433722_F TCGTCGGCAGCGTCCAGACGCGTGGTGGTTATCT 60.1 0.02
mm4__chr1 47.43 Mbp_chr1_47433722_R GTCTCGTGGGCTCGGCTCCAGTGTGTGCACCTTCA 60.1 0.02
mm4__chr20 46.69 Mbp_chr20_46689540_F TCGTCGGCAGCGTCCGGCAATCCTGGGACTTCTT 60.0 0.02
mm4__chr20 46.69 Mbp_chr20_46689540_R GTCTCGTGGGCTCGGAGAGCCGAAAAGTTGGGAGG 59.9 0.02
mm4__chr10 49.68 Mbp_chr10_49679587_F TCGTCGGCAGCGTCCAGCTCAAACGCGCGTATTT 60.1 0.02
mm4__chr10 49.68 Mbp_chr10_49679587_R GTCTCGTGGGCTCGGAAGCAACCTCTCTTCCGGC 60.0 0.02
mm4__chr17 75.53 Mbp_chr17_75525695_F Primer3: not found at this Tm N.d. 0.02
mm4__chr17 75.53 Mbp_chr17_75525695_R Primer3: not found at this Tm N.d. 0.02
mm4__chr10 43.14 Mbp_chr10_43138429_F Primer3: not found at this Tm N.d. 0.01
mm4__chr10 43.14 Mbp_chr10_43138429_R Primer3: not found at this Tm N.d. 0.01
mm4__chr1 155.13 Mbp_chr1_155127797_F Primer3: not found at this Tm N.d. 0.01
mm4__chr1 155.13 Mbp_chr1_155127797_R Primer3: not found at this Tm N.d. 0.01
mm4__chr1 201.67 Mbp_chr1_201665757_F TCGTCGGCAGCGTCGGGTAAGACCAGGGTGCTTC 60.0 0.01
mm4__chr1 201.67 Mbp_chr1_201665757_R GTCTCGTGGGCTCGGTCCAAGCAGCAGCAGGTTTA 59.8 0.01
mm4__chr2 219.44 Mbp_chr2_219442104_F Primer3: not found at this Tm N.d. 0.01
mm4__chr2 219.44 Mbp_chr2_219442104_R Primer3: not found at this Tm N.d. 0.01
mm4__chr6 165.86 Mbp_chr6_165855290_F TCGTCGGCAGCGTCAATGAACAGAGGCGGATGGG 60.1 0.01
mm4__chr6 165.86 Mbp_chr6_165855290_R GTCTCGTGGGCTCGGGCTACCAGGTGATCCACAGG 59.8 0.01
mm4__chr18 5.89 Mbp_chr18_5890696_F TCGTCGGCAGCGTCGTACCTGCCGGTCCTGGG 61.7 0.00
mm4__chr18 5.89 Mbp_chr18_5890696_R GTCTCGTGGGCTCGGTCGACCTGAGCATGACCAAC 60.0 0.00
mm4__chr11 35.66 Mbp_chr11_35662855_F TCGTCGGCAGCGTCATCTCTCCCTGGTAGCGGG 60.1 0.00
mm4__chr11 35.66 Mbp_chr11_35662855_R GTCTCGTGGGCTCGGGTCCCTGCGCTTCCTCTG 60.1 0.00
mm4__chr13 19.18 Mbp_chr13_19177160_F TCGTCGGCAGCGTCTCGAAGCAGGCATTGGTGAT 60.0 0.00
mm4__chr13 19.18 Mbp_chr13_19177160_R GTCTCGTGGGCTCGGGACCAACCTAGTGCCGTACC 60.1 0.00
mm4__chr8 143.73 Mbp_chr8_143729081_F TCGTCGGCAGCGTCTTGAAGGACTTCCCAGTGCG 60.2 0.00
mm4__chr8 143.73 Mbp_chr8_143729081_R GTCTCGTGGGCTCGGGATGTGAGTTCCCGGGAGTG 60.1 0.00
mm4__chrX 40.01 Mbp_chrX_40005699_F Primer3: not found at this Tm N.d. 0.00
mm4__chrX 40.01 Mbp_chrX_40005699_R Primer3: not found at this Tm N.d. 0.00

Off-target amplicon sequences

Primers underlined, off-targets in bold.

ontarget_mm0__chr7 5.53 Mbp_chr7_5529703 TGGTGAGCTGCGAGAATAGCCGGGCGCGCTGTGAGCCGAGGTCGCCCCCGCCCTGGCCACTTCCGGCGCGCCGAGTCCTT
AGGCCGCCAGGGGGCGCCGGCGCGCGCCCAGATTGGGGACAAAGGAAGCCG
mm4__chr1 3.40 Mbp_chr1_3397632 GGGTTCGAGCCTAACTGCTTTACTTTGGGAGGCCCCGCAAGTGAACAGGAACGCAAGCTCCCTCCTGGCCGTTTCCGGCG
CTGGTGATTCCTGCTGGTGCTGGAGCCTGGAGGGAGGCTGAGTTTTCC
mm4__chr15 75.29 Mbp_chr15_75294384 AGTGAGCCTGGACAACAACGTGGAGCCTGCACCAGGAGTGGCCAGGGAGGGTTCTCCCCATAACAACCCCACTGTACAGC
AGATCGTGCAGCTGTCTCCTGTCAT
mm4__chr16 27.81 Mbp_chr16_27811503 TCCTCATCCCGGAACACCACCTCCCTGGCCACATCCAGCACCTCTAGGTCAACAGAGGCCTGTCCTATTGCATAAAGGGC
TTCCAGCATCCTC
mm4__chr15 90.30 Mbp_chr15_90295595 GATCCCCTCCTCCCTCTCTCCGAAGATCTTTGTGAGGTGAGCCTCACTGACAGCGTGGAGCCCGCACCAGGAGAGGCCAG
GGAGGGTTCTCCCCACGACAACCCCACTGCACAGCAGATCATGCAGCTGCTTCCTGT
mm4__chr6 163.83 Mbp_chr6_163834699 AGCAAAACCCACACCCTCTCCCCAGCCACCAAAGCCCGTGCCAGGAGTGGCCAGGAGGGACCCGCAGGACAGGAAAGACC
CC
mm4__chr19 6.22 Mbp_chr19_6224456 GAGAGACTGCAATGCCACCTGCCACCCTGGCCTCTTCCAGCAGGGGACACACGCCCAGCTGGGCTGCAGGAGCTCAGCCG
GGGTCACAGCCACCAAGGGCAGAATGAGAGCAAACTCCAAAGGCACGTCAGAG
mm4__chr10 28.11 Mbp_chr10_28113980 TTAGCATGACCTCCCATGGCCCGCCATCCCTCCCCAAAGCTTCGGTATTCCAAGGGAGAGTCTCCTGCCAGGAGTGGCCA
GGGAGGGCCAGCTCCTCTCTCCAGTGT
mm4__chr19 16.37 Mbp_chr19_16371662 AAGGTGACTGGCTGGTTAGCGGTAGAACTGCGCTGGCTGGTGTCACCGGGCGCTGCAGGCAGGAACCGCAACGCAGGGCC
GCGCTGGCAGGAAGTGGCAAGGGTGGGGCCGGTCGCAGGATCCCACTATCG
mm4__chr14 70.03 Mbp_chr14_70032509 AAGGACATCTGAGGTGCTGCCAATGATGAACCTAGCAGGGGACCCGGAAGTGGCCAGTGTGGTACTGCACCTAGAGAGGG
GACTC
mm4__chr1 1.15 Mbp_chr1_1150628 CATTTGGGAGGAGGCCAGACCTAGGGCCTGAACCCTCACAGGGGCTGCAGGGGGATGCAGAGCTGGGGCCCCCTCACTGG
CCTCTTCCAGGGCGTCCACCCCAAGGCCTGAGGGGGCCGTCCTGGTAGCTTTCACG
mm4__chr11 2.41 Mbp_chr11_2409231 TGAGTGTCTGTGTGTGCACTGGCAGTCAGTGAGCGCCAGCCCTCCCCACGCTCCCACCCTAGGCCTGCCCCTCCTCTGTC
CGCCCTGGCCACCTCCAGCCCATGAATCTGTTCCTGGGCAGACTGATG
mm4__chr16 57.67 Mbp_chr16_57667615 AGGGTGACAGACAGTGCATGCAAGGTCACCCGGCCAGGAAGTGGCCAGGATGGATGTTAGCTCAGGCCTGACCAGCCCCC
GGGGCCGCACTGCTGTCTTCCCGCTACCCTGCCTCTGGGTCCGTCCTGTTATCCA
mm4__chr1 155.24 Mbp_chr1_155235675 GGCCTGGTATGGAATGGGGGTGCCCGCCCTCCACTCACCTGAAGTGGCCAAGGTGGTAGAACATGGGCTGTTTGTAAAAC
GTGTCCTTGGTGATGTCTACAATGATGGGACTGTCGACAAAGTTACGCACCCA
mm4__chr1 155.22 Mbp_chr1_155215048 GGCCTGGTATGGAATGGGGGTGCCCGCCCTCCACTCACCTGAAGTGGCCAAGGTGGTAGAACATGGGCTGTTTGTAAAAC
GTGTGCTTGGTGATGTCT
mm3__chr12 45.05 Mbp_chr12_45050714 CAGCTTTAGGGGAACTGGGCTAGCAGGCAGGGGCCGGAGCTGCGCGCCCGCGGTGGCCAGGGCGGTCGCCGGGTCGTGGG
GCGCGGGCGGCTGCAGCCTGGGCGTTGGGGCGCCCCCGACCCGCAGCAAATTCTCGATC
mm4__chr12 48.73 Mbp_chr12_48727450 ACCATGGTTACCAGGCACAGAGTCCAGTGCCCCAACCTGGACGTTCCAGAAGAGGCCAGGGAGGATCTGAGATGGCCTTC
TTCAACT
mm4__chr5 73.22 Mbp_chr5_73216153 CTTTTCCTCCCTGCCCAAGTGCGGTGCACCCGCGCACCACCCAAGCGCCCAGCATCGAGGGCGCGGCGGCGGCGGCCAGG
GCGGCCAGGGCCCTTGAGCACCCGCGCGGTTTTCCCCCTATGGCCGCATGGG
mm4__chr21 46.11 Mbp_chr21_46112604 ATCAAGGTCATGGTGAGCCGCGGGCGGGAGCACCGTCCACGCGCCAGGGGTGGCCACGGTGGGCCGTCCACCCACTCCGG
GCCTCACTTTACCCCTCTG
mm4__chr16 2.19 Mbp_chr16_2190772 CGGCCCAATCTGTCTCTCAGAAGGATCCAGATGGGGCCGGGGGTGGCCAGGGAGGCTGGAACACCCGGAAATGGG
mm4__chr3 168.10 Mbp_chr3_168095661 CCAGATGCCTCCTGCCTTTTTTCCTTCTTCCCACTTTTTGGCCCCGCTGCCCCCGGGCAGTTCTTGGAGTCCCGCCCTGG
CCACTCCCCGCCCTATCGCGGCGGCTCCCACTGCACGACTTTGTTG
mm4__chr10 31.32 Mbp_chr10_31318841 AATCAGCCAGATCCCTCCCTGCCCCGGGCAGCCGCGGCGGGTGTGGCCAGCGCGGAGGCAGGACGCCGCCGAGCCTCCAA
CTTTACCTTTCCAACTCCGACAGC
mm4__chr20 63.24 Mbp_chr20_63235893 GAGCATGTGACCCCAGAGGCCACCCTGGCCACTTCCAGAAAGCTGTGGGCCCTGGGATACTCCCCTCCCAGGGTGTCTGG
TGGCAGGCCTGTGCCTATCCCTGCTGTC
mm4__chr1 10.70 Mbp_chr1_10702725 TCCAGGTTTGTGTCTGCCTCCTCCCAGCCCCATTCCACTGCCCCACCCCTGCCAGCGGGGGAAGTGGCCACGGTGGCCTG
GGCAAGAGAGATGTCAATGGGGCCGATGGGAGAAGGGGCTTGTTG
mm4__chr18 48.34 Mbp_chr18_48337318 CCACCCCAGCCTACCATTTTCCCCACGGTGGAAGTTGCCAGGGTGGTACCTCATATGACGCACACAGCAAAGACCAGAAA
ATCCATGGGAACAGGCTGTG
mm4__chr16 57.10 Mbp_chr16_57103557 CAGGACATCCCACTGTGGTCCCAGCTCCTCCTCTCCACCAGCCTCTGGAATGGGGGCTGCCTCCCTGGCCACCTCAGGCC
TGCCCTTCACCATCCAGCAGCTCTTCTCCCCTTC
mm4__chr20 63.89 Mbp_chr20_63890189 CACTGTGCTGTCCTTCCTAGGGGTGCAGGAAGTGGACAGGGCGGAGGGTTTGAAAGAATATTGAGCCAAAGCCCAGGCTC
CCTTTGGGAATCATGTTAGCCCATCAGAATGTTGAAGGA
mm4__chr1 16.14 Mbp_chr1_16139300 CCCTACAGGCAGGAAGCTGCCCAGACACAGGGCTCACGGTGCAGGGCTGTCCAGGGCTTGGGCAGCTGCTGAAGTGGCCA
GGGTGGGTAGAGGTCACCCTAGGGAGCTCCTCCAACAACCCTAC
mm4__chr7 101.24 Mbp_chr7_101244997 ACAGACACCAGCTCGTTCAGCACGGCCTCCATGGCCACTGCCCCCGCGAGCCTCACACTACAGTCTACTGTGCCACAGTC
TCCATGGCCCAG
mm3__chr8 143.82 Mbp_chr8_143818334 AAGCCCTAGACACAGGGACACACCTGTCAGGCTGCGCGAGCCCAGGGGTGGGGGCGAGCCCGAAGTGGCCGGGGCGGACC
AAGCCTGCTGACCTTGTGCTTCATGGTGACGGAGTC
mm4__chr2 10.30 Mbp_chr2_10302496 CAACTCGGCTCTTCCCCTTCCTAGGCCGCCCGGGCCACTTCCTGCGGCGTGGGGGCGGGGGGCGCGGGCGCAGGGCTGGC
CCCTCCCGGGCGCCGCCTCTCGGCCTCTTCTATACCAGCAGGCCAGAGG
mm4__chr18 45.48 Mbp_chr18_45479857 CATTACCCACAGCAACAGGCCTCTGAGCCCCCAAAGGTCTGGACTCTGTCCGGATGTGGCCAGGGAGGAAGGATCCTCTG
GGAAATGGAACATTGCAAGACGTGA
mm3__chr3 149.75 Mbp_chr3_149752481 TGTCCTACGATTTCACCCGGCAGCGCCGACCCCGCCTTCGCCACTTCCGGCGCCCGTGTCCCGGCGCCTAGAGGCTCCGG
CGTCGCAGCGTCCGGAGCTTTGGGTTCCGGCCTACGAACTAACGCGTTACACTCGGACG
mm4__chr1 203.15 Mbp_chr1_203151219 TGAAGGGAGGTGGGAGGAAAGGCGTGGGCTCACCCTGAGTCCGCCTCCCATATCTCCAGTATCCTCCCTGGCCACTTCCC
CAGTGGAGCTTTACTGGGGTTCTCCAGGGAGCGTGACTTCTCCAGGAC
mm4__chr15 101.01 Mbp_chr15_101014444 ACTTGGCAAGTAAGCAGGGGCCTCTCCTCCCTGGCCAGTTCCAAAGCGTGTGTGGGGCCACGGTCGAGCAGGTCCTCTGA
ATGG
mm4__chr17 47.70 Mbp_chr17_47699389 GTGAGTGACCTGGAGCGGCGGCGGCTAGAAGAGGCTTTGGAGGCCGCGCAGGGAGAGGCCCGGGGGGCTCAGCTCCGGGA
GGAGCAGCTCCAGGCCGAGTGCGAGCGGCTGCAGGGGGAGCTGAAGCAGCTGCAGGAGAC
mm4__chr11 46.37 Mbp_chr11_46369544 TGGTGGTCACTGCCATGTTTCACAGATAAATTTCCGCTGTAAGCCGTCCTTCCGTGAATCAGGCTCCAGGAATGTCCGCG
AGGTAAGTGCCCAGGGTGGTCAGGGATGGGGCCACCCTAAGATTCCTGCATGGGCCTC
mm4__chr1 230.80 Mbp_chr1_230795273 GGTATGCGGATGAGGAGCTCCAGCTGGACTTCGATGACTTCCTCAACTGCCTGGTCCGGCTGGAGAATGCGAGCCGTAAG
TGTCCAGCGAGGCTGAGGGTGCACCTCGGGGTGGCATCTTCAGTCACCCTCC
mm4__chr22 39.70 Mbp_chr22_39698243 CTCATCAGGTCACAGGGCTGGCCCAGGCTGCAGGAAGCGCGGGAGGTGGACAGGGAGGCTGTGGGTTGCACCCAGGCCCT
GGGGCCTCCTCCTGCAGTGATG
mm4__chr15 31.81 Mbp_chr15_31813010 ATGGATTCTCAAGGCCAGGCCCTTCCCTGGCCACTTTCGGAACCCAACCCAAAACACAGAGAAGGTAGAAGCAAGACACC
TGATGCG
mm4__chr10 13.35 Mbp_chr10_13347320 CCAACCCCGGACCTACCTCCCCGCCGGCCCCGCACAATGGGGCGCGCTCTCCAGGACGCCCGCGTCGGAGGCGGCCGGGG
AGGGGAGCAAGGAACCCGGGGACAC
mm4__chr20 3.89 Mbp_chr20_3889779 GTAAGTGTTCCGTGGGGCGCCCTCCCGGCCCGCCCTGCCCCCCCTTCCGGCCCACCCTGTCCCCTTCCGGCCCCGCCGCC
GTTTTTCCCGCGCGCGGACACTGTCCCCGCACGGTGGTCCCTCGTTGGTG
mm4__chr2 232.49 Mbp_chr2_232487661 AGAGGACGCAGACAAAGCCGGGAGGCTCCGCGCAGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NAGGGACTCGGGCGCCACTTAC
mm4__chr3 11.72 Mbp_chr3_11719828 GGAGGGAGATAGGGGCGAGGCCTCCCGCGGCAGGGAGAGGCCGCTTTCCCTCCCCCGCCAGCTGCGCGCCCGGTGCCAGC
TCGCACCTCCCGGGCCGATGCCGGCGCGCTGGGGCAGTGAGGTTTGTC
mm4__chr6 87.72 Mbp_chr6_87718840 GCACAACCTTCAGAGCTTGCTTACTCAACAAAGGGTCCCGGCATAAACCTCACACTGGAAGTGGGCAGGGAGGCTGCGCT
GCCTGTGGCCAGAAATGTGCTAGCTGC
mm4__chr3 94.06 Mbp_chr3_94063190 GACAATGCTGACCCAGGTGAGACCTGGGGCCCGGCTGGGTACCTCTATCTGAATGAGACGCTTCTGGACGCGGCCGAGGT
GGCGAGGGAGGGTGCTGGGATGGGGGAACATCACCTTTGTTCGTCCCCTC
mm4__chr17 14.21 Mbp_chr17_14206924 GGCTACTGCATGATGTCGGTCACCCACCCGGGCCTGTGCCGGCGCGTGGCGCTGCGCCACTGCCTGGCCCTGCTCGTGCT
GTCCGCAGCAGCCCCTGTGCTGGACATCACCACATGGA
mm4__chr2 8.59 Mbp_chr2_8593935 CTCCAACGTGACAAGAGGGGCTCCCATGTCCGCTGACCTGTGCAGTTAAACAACCTTGATAGGTGTTTCCTTTTCCTCCT
CCCTGCCTTCTTCCGGCGTGCTCTCCCAGCCCATCCCTGGTGATCCTCATGCCTC
mm4__chr6 18.16 Mbp_chr6_18155318 CGTACCTCGTTGCACAGACTCCACCCACTTCCCCAAGCGCCGGGGTTTGCGCAGCGGCGGAAATGGGCAGGGCGGAGCGA
GCGCTGCGGCTAAAGCGAAGGCGGGGACCCTACCCATCCCTAGTCCTGTCG
mm4__chr1 205.81 Mbp_chr1_205813030 TCGCTACATTTCGCTTCTGCGTTACAGCGAGGCCGCCGCTCCGCTTCCACGCGGGGGAGGTGGCCGGGGAGGGCAGGATA
TATCGCTTCGGGCCC
mm4__chr22 38.14 Mbp_chr22_38143529 CTCGTACAAGAGATGGGCCCCAGGGCCACACCAGCAGGAAGTGGGCAGGGTGGTGGCACAGGAAAGGGTCACAGA
mm3__chr19 22.89 Mbp_chr19_22893824 CTTTCCGCGGGCAGAGTGGCAGGTGCCGCGCCGGAGGTGGTCATGGTGGAGTGGGCGTCCCTGCTCGGCGTCCTGCCTCT
CTGGTTAC
mm4__chr17 74.92 Mbp_chr17_74923073 CGGTGGTACTGGTCGTTCATGGCGCCCGAAGTGGACGGGGCGGGCGGGGGACACGGAGAAAGGCCCCCCGCAGGGGAGGG
CGGCGGTATTAGGGCTGAGGCATGAGGTTGGAGG
mm4__chr12 49.23 Mbp_chr12_49234645 CTCTGTCCCCGGTGACCAGCAGGCGGCGCTATCTCCAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNACGCCCTGCTGTTTAGAAGCGGCCTT
mm4__chr17 75.73 Mbp_chr17_75731006 TCAATGTGAGGGCAGCTCAGGCTCCAGAGTCTGAGCCCTTCTGGGGCAGGGCAGGAAGTGGGCAGGGTGGGCAAGAGGTG
TCTTGGATCACGGTGGAGAAATGGGTCTGGG
mm4__chr1 47.43 Mbp_chr1_47433722 CAGACGCGTGGTGGTTATCTCCGCGCCAGCGCCTGAAGTGGGCAGGTGGGCTTCAGAGTTGAAGGTGCACACACTGGAG
mm4__chr20 46.69 Mbp_chr20_46689540 CGGCAATCCTGGGACTTCTTCGGCTACCCGAATGCGTCCACCCCGGACACTTCCGGCCTGTAAGTGGTTACGCCTCCCAA
CTTTTCGGCTCT
mm4__chr10 49.68 Mbp_chr10_49679587 CAGCTCAAACGCGCGTATTTGCGGACCAGGCGCTGAGGGTCACGTGAGCAGCTTGGGGCCGGGAGGATCCCCTAGCGCCA
CCCCGGCCCCGCCCGGCGCGTAGCGACGCCCACGCGCCCGGGCCGGAAGAGAGGTTGCTT
mm4__chr1 201.67 Mbp_chr1_201665757 GGGTAAGACCAGGGTGCTTCTTAGAACACCTGGCTCCTTTACTGCAGACACACCTTTGGAGAATCATCATTAAGATGACT
GAATTGCCTCTGCCTCCCTGCCCACTCCCAGCCCGACAGTAAACCTGCTGCTGCTTGGA
mm4__chr6 165.86 Mbp_chr6_165855290 AATGAACAGAGGCGGATGGGTGGAGCAGGTGCTGGTGAGGGCACCAGCCTTCGAGGGGACTCATAGGCGGCGCGGGAAGT
GGCGGGGGGGGGGGGGGACTCAGGGGCGCTGCCTCCTGTGGATCACCTGGTAGC
mm4__chr18 5.89 Mbp_chr18_5890696 GTACCTGCCGGTCCTGGGCAGGCGGCCGCCCTGCCCCCTGGCGGCGCGCGCCGCTACCGCGCCCTCGGGCTCCTCCGGCT
CCCGGCGCGCCCCGCGCATGCTGCCCTCTGCGCCGCGGAGGTTGGTCATGCTCAGGTCGA
mm4__chr11 35.66 Mbp_chr11_35662855 ATCTCTCCCTGGTAGCGGGAGGCTGAGCGGGCGGCGCGACGCGGGGGCCGACGGGGGCGCCGGGTGGCCGCGCCGGAAGT
GCCTTGCGCGGCAGAGGAAGCGCAGGGAC
mm4__chr13 19.18 Mbp_chr13_19177160 TCGAAGCAGGCATTGGTGATCTCAGCCACGGACAGCTGCTCGTGGTAGGCCTTCTCGGCTGAGATGACCGGGGCGTAGGT
GGCCAGGGGGAAGTGGATGCGGGGGTACGGCACTAGGTTGGTC
mm4__chr8 143.73 Mbp_chr8_143729081 TTGAAGGACTTCCCAGTGCGGCAGTAGTAGGTGGGGCCCGCCACAGTCCGTACGCGCAGGAACTGGGGAGGGAGGGGAGT
CAGATCTCTCCCACGGGTCCTCCCCAATCTCCCACTCCCGGGAACTCACATC

Input file for Crispresso

Crispresso, written by Luca Pinello, is a software package to quantify the Cas9-induced mutations on off- or on-targets.

Click here to download an amplicon input file for Crispresso. For each off-target, it includes the off-target name, its PCR amplicon and the guide sequence. Keep a copy of this file.

After sequencing, run CRISPRessoPooled. The tool will map the reads to the amplicons and analyse the mutations:
CRISPRessoPooled -r1 Reads1.fastq.gz -r2 Reads2.fastq.gz -f crisporAmplicons_gYvicTzp9e5VPFC9YwLR.txt --name MY_EXPERIMENT

Version 4.7 - Documentation  - Contact us - Downloads/local installation - Paper - License
CRISPR/Cas9 Guide Designer for chordate vertebrate ecdysozoans lophotrochozoans protostomes spongi corals plants butterflies metazoans genomes fruitflies insects nematodes mammals.