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Contents:

PCR primers for off-targets of ATGTGCAAGGCCGGCTTCGC GGG

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_5529589_F TCGTCGGCAGCGTCCACGATGGAGGGGAAGACG 59.8 1.00
ontarget_mm0__chr7 5.53 Mbp_chr7_5529589_R GTCTCGTGGGCTCGGGCTATTCTCGCAGCTCACCA 60.1 1.00
mm0__chr22 41.08 Mbp_chr22_41075171_F TCGTCGGCAGCGTCATGCCCACCATCATGACCTG 60.1 1.00
mm0__chr22 41.08 Mbp_chr22_41075171_R GTCTCGTGGGCTCGGTATTGCTGCGCTCGTTGTTG 59.8 1.00
mm2__chr3 175.98 Mbp_chr3_175978511_F TCGTCGGCAGCGTCGAGTCCTTCTGACCCATGCC 60.1 0.86
mm2__chr3 175.98 Mbp_chr3_175978511_R GTCTCGTGGGCTCGGGGCTTGTAGTCAGCAAAGGC 59.4 0.86
mm1__chr5 98.34 Mbp_chr5_98338788_F TCGTCGGCAGCGTCGCTCCTCATCAACAAGGGCT 60.0 0.71
mm1__chr5 98.34 Mbp_chr5_98338788_R GTCTCGTGGGCTCGGTTTTGACCCATGCCCACCAT 60.1 0.71
mm2__chr5 77.78 Mbp_chr5_77784931_F TCGTCGGCAGCGTCATATCACCGCGCTCGTCATT 59.9 0.65
mm2__chr5 77.78 Mbp_chr5_77784931_R GTCTCGTGGGCTCGGAACGATGGAGGGGAAGACTG 59.0 0.65
mm1__chr9 100.73 Mbp_chr9_100731284_F TCGTCGGCAGCGTCGCCAGCTCACCATGGATGAT 60.1 0.64
mm1__chr9 100.73 Mbp_chr9_100731284_R GTCTCGTGGGCTCGGCTAGGGAGCTCCACGATGGA 60.4 0.64
mm1__chr22 15.72 Mbp_chr22_15721531_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr22 15.72 Mbp_chr22_15721531_R GTCTCGTGGGCTCGGATCATGTTCTGGTGCCTGGG 60.0 0.64
mm1__chr2 131.63 Mbp_chr2_131626183_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr2 131.63 Mbp_chr2_131626183_R GTCTCGTGGGCTCGGACTCCTTCTGATGCATGCCC 60.1 0.64
mm1__chr2 131.26 Mbp_chr2_131263600_F TCGTCGGCAGCGTCTGGATGATGATACCGCCGTG 59.9 0.64
mm1__chr2 131.26 Mbp_chr2_131263600_R GTCTCGTGGGCTCGGGATGGAAGGGAAGACAGCCC 60.1 0.64
mm1__chr2 130.66 Mbp_chr2_130656794_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr2 130.66 Mbp_chr2_130656794_R GTCTCGTGGGCTCGGGATGGAAGGGAAGACAGCCC 60.1 0.64
mm1__chr2 130.46 Mbp_chr2_130463875_F TCGTCGGCAGCGTCGATGGAAGGGAAGACAGCCC 60.1 0.64
mm1__chr2 130.46 Mbp_chr2_130463875_R GTCTCGTGGGCTCGGGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr2 130.08 Mbp_chr2_130075303_F TCGTCGGCAGCGTCGATGGAAGGGAAGACAGCCC 60.1 0.64
mm1__chr2 130.08 Mbp_chr2_130075303_R GTCTCGTGGGCTCGGGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr14 19.40 Mbp_chr14_19402840_F TCGTCGGCAGCGTCATCATGTTCTGGTGCCTGGG 60.0 0.64
mm1__chr14 19.40 Mbp_chr14_19402840_R GTCTCGTGGGCTCGGGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr14 19.00 Mbp_chr14_18998912_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.64
mm1__chr14 19.00 Mbp_chr14_18998912_R GTCTCGTGGGCTCGGATCATGTTCTGGTGCCTGGG 60.0 0.64
mm2__chr2 73.90 Mbp_chr2_73901359_F TCGTCGGCAGCGTCGTGTGAAGAGGAGACCACCG 60.0 0.61
mm2__chr2 73.90 Mbp_chr2_73901359_R GTCTCGTGGGCTCGGCCCACAATGGAGGGGAAGAC 60.0 0.61
mm2__chr15 43.99 Mbp_chr15_43990116_F TCGTCGGCAGCGTCAATGAAGGGGAAGATGGCCC 59.7 0.59
mm2__chr15 43.99 Mbp_chr15_43990116_R GTCTCGTGGGCTCGGGCCAGCTCACCATGGATGAT 60.1 0.59
mm2__chr3 180.82 Mbp_chr3_180820588_F TCGTCGGCAGCGTCAATGATATCGCCACGCTCGT 59.9 0.49
mm2__chr3 180.82 Mbp_chr3_180820588_R GTCTCGTGGGCTCGGTTCTTCTGACCCATGCCCAC 59.9 0.49
mm3__chr10 69.02 Mbp_chr10_69022798_F Primer3: not found at this Tm N.d. 0.48
mm3__chr10 69.02 Mbp_chr10_69022798_R Primer3: not found at this Tm N.d. 0.48
mm2__chr18 62.44 Mbp_chr18_62442053_F TCGTCGGCAGCGTCCCTCGTCATCGACAATGGCT 60.1 0.39
mm2__chr18 62.44 Mbp_chr18_62442053_R GTCTCGTGGGCTCGGGAGTCCTTCTGACCCATGCC 60.1 0.39
mm2__chr1 223.86 Mbp_chr1_223864783_F TCGTCGGCAGCGTCTGACCCATGCTCACCATCAC 60.0 0.38
mm2__chr1 223.86 Mbp_chr1_223864783_R GTCTCGTGGGCTCGGCGCTCGTCATTGACAACAGC 60.1 0.38
mm4__chr10 110.49 Mbp_chr10_110494674_F Primer3: not found at this Tm N.d. 0.29
mm4__chr10 110.49 Mbp_chr10_110494674_R Primer3: not found at this Tm N.d. 0.29
mm2__chr9 6.83 Mbp_chr9_6834500_F TCGTCGGCAGCGTCCCGCTACCAGCTCACCATAG 59.9 0.26
mm2__chr9 6.83 Mbp_chr9_6834500_R GTCTCGTGGGCTCGGACACGATGAAGGGGAAGACG 59.7 0.26
mm4__chr22 35.52 Mbp_chr22_35518289_F Primer3: not found at this Tm N.d. 0.26
mm4__chr22 35.52 Mbp_chr22_35518289_R Primer3: not found at this Tm N.d. 0.26
mm4__chr8 42.34 Mbp_chr8_42335144_F TCGTCGGCAGCGTCGCCGTGTTTGACACTTCAGC 60.3 0.24
mm4__chr8 42.34 Mbp_chr8_42335144_R GTCTCGTGGGCTCGGTCCCTGCTCACTCCTCCTC 59.9 0.24
mm3__chr10 128.77 Mbp_chr10_128767247_F Primer3: not found at this Tm N.d. 0.24
mm3__chr10 128.77 Mbp_chr10_128767247_R Primer3: not found at this Tm N.d. 0.24
mm4__chr11 8.20 Mbp_chr11_8201792_F TCGTCGGCAGCGTCGTCAGCTTTCCATGGGCAAC 59.7 0.22
mm4__chr11 8.20 Mbp_chr11_8201792_R GTCTCGTGGGCTCGGGCAGCCTTGCTTCATTTCCT 59.1 0.22
mm3__chrY 18.15 Mbp_chrY_18147928_F Primer3: not found at this Tm N.d. 0.22
mm3__chrY 18.15 Mbp_chrY_18147928_R Primer3: not found at this Tm N.d. 0.22
mm3__chrY 17.76 Mbp_chrY_17758057_F TCGTCGGCAGCGTCAACGGTGGAGGGAAACATGG 60.2 0.22
mm3__chrY 17.76 Mbp_chrY_17758057_R GTCTCGTGGGCTCGGTCCTCTGTCCCACTCCTCTG 59.9 0.22
mm3__chrX 53.14 Mbp_chrX_53143845_F TCGTCGGCAGCGTCGATGGAGGGGAACACAGCTC 60.1 0.22
mm3__chrX 53.14 Mbp_chrX_53143845_R GTCTCGTGGGCTCGGTGCTCTTCCACAGGTTGCAA 60.1 0.22
mm3__chr5 61.83 Mbp_chr5_61832977_F TCGTCGGCAGCGTCCCATCATCATGCCCTGGTGT 60.1 0.22
mm3__chr5 61.83 Mbp_chr5_61832977_R GTCTCGTGGGCTCGGGGCTGGTCATTGACAATGGC 59.8 0.22
mm3__chr5 15.45 Mbp_chr5_15450744_F Primer3: not found at this Tm N.d. 0.22
mm3__chr5 15.45 Mbp_chr5_15450744_R Primer3: not found at this Tm N.d. 0.22
mm3__chr2 57.76 Mbp_chr2_57764997_F TCGTCGGCAGCGTCAGATTGCTGGCTCGTCAATGA 60.0 0.22
mm3__chr2 57.76 Mbp_chr2_57764997_R GTCTCGTGGGCTCGGCTTCTTGCCCATGCCCACTA 60.0 0.22
mm3__chr1 237.93 Mbp_chr1_237926875_F TCGTCGGCAGCGTCCTCCTCCACCAGTCACGATG 59.8 0.22
mm3__chr1 237.93 Mbp_chr1_237926875_R GTCTCGTGGGCTCGGTGGAGGGAAACACAGCTTGG 60.1 0.22
mm3__chr1 103.57 Mbp_chr1_103569597_F Primer3: not found at this Tm N.d. 0.22
mm3__chr1 103.57 Mbp_chr1_103569597_R Primer3: not found at this Tm N.d. 0.22
mm4__chr12 28.65 Mbp_chr12_28648512_F Primer3: not found at this Tm N.d. 0.20
mm4__chr12 28.65 Mbp_chr12_28648512_R Primer3: not found at this Tm N.d. 0.20
mm4__chr10 88.95 Mbp_chr10_88948856_F Primer3: not found at this Tm N.d. 0.19
mm4__chr10 88.95 Mbp_chr10_88948856_R Primer3: not found at this Tm N.d. 0.19
mm4__chr3 139.49 Mbp_chr3_139493859_F TCGTCGGCAGCGTCTGCCGGTCACAATGGAAGAA 59.8 0.19
mm4__chr3 139.49 Mbp_chr3_139493859_R GTCTCGTGGGCTCGGATGGAAGGGAACATGGCTCG 60.1 0.19
mm4__chr20 33.68 Mbp_chr20_33678155_F Primer3: not found at this Tm N.d. 0.19
mm4__chr20 33.68 Mbp_chr20_33678155_R Primer3: not found at this Tm N.d. 0.19
mm4__chr4 153.93 Mbp_chr4_153925779_F TCGTCGGCAGCGTCACAGCTCTCTTCTATGGCCC 58.8 0.18
mm4__chr4 153.93 Mbp_chr4_153925779_R GTCTCGTGGGCTCGGTCACTTTCATCCCCTGCACA 59.2 0.18
mm3__chr6 101.43 Mbp_chr6_101431468_F Primer3: not found at this Tm N.d. 0.18
mm3__chr6 101.43 Mbp_chr6_101431468_R Primer3: not found at this Tm N.d. 0.18
mm4__chr7 44.77 Mbp_chr7_44765386_F TCGTCGGCAGCGTCGAGATCACCATCGACCCCAC 59.8 0.17
mm4__chr7 44.77 Mbp_chr7_44765386_R GTCTCGTGGGCTCGGCTTCAGTGCTGGCCCATCC 60.7 0.17
mm4__chr4 183.42 Mbp_chr4_183424380_F Primer3: not found at this Tm N.d. 0.17
mm4__chr4 183.42 Mbp_chr4_183424380_R Primer3: not found at this Tm N.d. 0.17
mm4__chr19 58.56 Mbp_chr19_58563367_F TCGTCGGCAGCGTCGGGTCCTGTTCACTCCTCAG 59.3 0.16
mm4__chr19 58.56 Mbp_chr19_58563367_R GTCTCGTGGGCTCGGGTGTAAGCCCTCACCTCCAC 60.0 0.16
mm4__chr2 67.50 Mbp_chr2_67500794_F Primer3: not found at this Tm N.d. 0.15
mm4__chr2 67.50 Mbp_chr2_67500794_R Primer3: not found at this Tm N.d. 0.15
mm4__chr2 81.59 Mbp_chr2_81590142_F Primer3: not found at this Tm N.d. 0.14
mm4__chr2 81.59 Mbp_chr2_81590142_R Primer3: not found at this Tm N.d. 0.14
mm4__chr17 17.12 Mbp_chr17_17116301_F TCGTCGGCAGCGTCCAGGGAGCACAGGACAATGA 59.6 0.13
mm4__chr17 17.12 Mbp_chr17_17116301_R GTCTCGTGGGCTCGGGCACAGAGCAGCCTCCTTTA 60.0 0.13
mm4__chr15 82.73 Mbp_chr15_82727357_F TCGTCGGCAGCGTCGGTGCCTGACAATGGAGAGG 60.3 0.12
mm4__chr15 82.73 Mbp_chr15_82727357_R GTCTCGTGGGCTCGGCCCCGACAGATCACAATGGA 59.4 0.12
mm4__chr10 73.68 Mbp_chr10_73683054_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 73.68 Mbp_chr10_73683054_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 50.00 Mbp_chr10_50001712_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 50.00 Mbp_chr10_50001712_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 48.02 Mbp_chr10_48018628_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 48.02 Mbp_chr10_48018628_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 47.51 Mbp_chr10_47510531_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 47.51 Mbp_chr10_47510531_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 46.35 Mbp_chr10_46350234_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 46.35 Mbp_chr10_46350234_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 46.12 Mbp_chr10_46122886_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 46.12 Mbp_chr10_46122886_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 45.83 Mbp_chr10_45834376_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 45.83 Mbp_chr10_45834376_R Primer3: not found at this Tm N.d. 0.11
mm4__chr10 45.69 Mbp_chr10_45691775_F Primer3: not found at this Tm N.d. 0.11
mm4__chr10 45.69 Mbp_chr10_45691775_R Primer3: not found at this Tm N.d. 0.11
mm4__chr5 173.17 Mbp_chr5_173168160_F TCGTCGGCAGCGTCTCTACAGGATGCTCAGCCAT 58.2 0.11
mm4__chr5 173.17 Mbp_chr5_173168160_R GTCTCGTGGGCTCGGGTGGAGCTGATCAGGGTCTG 59.8 0.11
mm4__chr2 201.50 Mbp_chr2_201499062_F Primer3: not found at this Tm N.d. 0.10
mm4__chr2 201.50 Mbp_chr2_201499062_R Primer3: not found at this Tm N.d. 0.10
mm4__chr1 21.88 Mbp_chr1_21879062_F TCGTCGGCAGCGTCGGGAGGCATCGATGTATGGG 60.0 0.09
mm4__chr1 21.88 Mbp_chr1_21879062_R GTCTCGTGGGCTCGGAGAATTGCCAGCACAACACG 59.6 0.09
mm4__chr5 32.32 Mbp_chr5_32316261_F Primer3: not found at this Tm N.d. 0.08
mm4__chr5 32.32 Mbp_chr5_32316261_R Primer3: not found at this Tm N.d. 0.08
mm4__chr2 127.43 Mbp_chr2_127430220_F Primer3: not found at this Tm N.d. 0.08
mm4__chr2 127.43 Mbp_chr2_127430220_R Primer3: not found at this Tm N.d. 0.08
mm4__chr19 54.55 Mbp_chr19_54549610_F TCGTCGGCAGCGTCACTGAGCAGAAGCCGGTAAC 60.0 0.07
mm4__chr19 54.55 Mbp_chr19_54549610_R GTCTCGTGGGCTCGGGAGCGAAGACAGAGGCATCA 59.8 0.07
mm4__chr19 9.52 Mbp_chr19_9518194_F TCGTCGGCAGCGTCGCTGTCAGCTCACCATGGAT 60.1 0.06
mm4__chr19 9.52 Mbp_chr19_9518194_R GTCTCGTGGGCTCGGCCACGATGGAGGGGAAGATG 59.8 0.06
mm4__chrX 118.18 Mbp_chrX_118180104_F TCGTCGGCAGCGTCACAGCATCTACCCCTCACCT 59.9 0.05
mm4__chrX 118.18 Mbp_chrX_118180104_R GTCTCGTGGGCTCGGCCGAAAACTGTGAGGCTCCA 60.2 0.05
mm4__chr13 110.68 Mbp_chr13_110676994_F Primer3: not found at this Tm N.d. 0.05
mm4__chr13 110.68 Mbp_chr13_110676994_R Primer3: not found at this Tm N.d. 0.05
mm4__chr2 133.73 Mbp_chr2_133727373_F TCGTCGGCAGCGTCTCAAAGCCGTCTCTCCTCCT 60.2 0.05
mm4__chr2 133.73 Mbp_chr2_133727373_R GTCTCGTGGGCTCGGGGGGCGGTTTCTAAGAGTCC 60.1 0.05
mm4__chrX 46.29 Mbp_chrX_46289060_F TCGTCGGCAGCGTCTGGAGGGGAAGACAACTGGG 61.1 0.04
mm4__chrX 46.29 Mbp_chrX_46289060_R GTCTCGTGGGCTCGGCTCCATCACCAGTCCACACC 60.0 0.04
mm4__chr13 97.63 Mbp_chr13_97630877_F TCGTCGGCAGCGTCATGTCCAGGGTGCACCATTC 60.3 0.04
mm4__chr13 97.63 Mbp_chr13_97630877_R GTCTCGTGGGCTCGGAGCCCTGAGATTGCACAACT 59.5 0.04
mm4__chr2 74.74 Mbp_chr2_74744085_F TCGTCGGCAGCGTCTGCCTCAAGGAGGGAAATCTC 59.4 0.04
mm4__chr2 74.74 Mbp_chr2_74744085_R GTCTCGTGGGCTCGGTCAGAGCTGGAACCCAACAC 59.8 0.04
mm4__chr22 33.67 Mbp_chr22_33665004_F Primer3: not found at this Tm N.d. 0.04
mm4__chr22 33.67 Mbp_chr22_33665004_R Primer3: not found at this Tm N.d. 0.04
mm4__chr5 144.40 Mbp_chr5_144403981_F TCGTCGGCAGCGTCTGTAGGAGGGGCTGGCAATA 60.3 0.03
mm4__chr5 144.40 Mbp_chr5_144403981_R GTCTCGTGGGCTCGGTCCACCCTTCCAGAGGCATA 59.9 0.03
mm4__chr5 131.66 Mbp_chr5_131660047_F TCGTCGGCAGCGTCATGCCCATCATCACACCCTG 60.1 0.03
mm4__chr5 131.66 Mbp_chr5_131660047_R GTCTCGTGGGCTCGGTGTCGTCGACAATGGCTCTG 60.3 0.03
mm4__chr16 61.97 Mbp_chr16_61969974_F Primer3: not found at this Tm N.d. 0.03
mm4__chr16 61.97 Mbp_chr16_61969974_R Primer3: not found at this Tm N.d. 0.03
mm4__chr17 1.18 Mbp_chr17_1180316_F Primer3: not found at this Tm N.d. 0.03
mm4__chr17 1.18 Mbp_chr17_1180316_R Primer3: not found at this Tm N.d. 0.03
mm4__chr2 45.84 Mbp_chr2_45843317_F Primer3: not found at this Tm N.d. 0.03
mm4__chr2 45.84 Mbp_chr2_45843317_R Primer3: not found at this Tm N.d. 0.03
mm4__chr8 143.71 Mbp_chr8_143707191_F TCGTCGGCAGCGTCAGGTGGGCTGGGAGAAGG 60.6 0.02
mm4__chr8 143.71 Mbp_chr8_143707191_R GTCTCGTGGGCTCGGGAGCAACTGCACCGCGAG 61.7 0.02
mm3__chr5 57.48 Mbp_chr5_57482636_F TCGTCGGCAGCGTCGTCGAGGACGCCCTATCATG 60.0 0.02
mm3__chr5 57.48 Mbp_chr5_57482636_R GTCTCGTGGGCTCGGGAAGATCTCAGCCAGCACCA 59.7 0.02
mm4__chr22 30.71 Mbp_chr22_30712841_F TCGTCGGCAGCGTCACAGGTTGTATCTTGGGGTCA 58.6 0.02
mm4__chr22 30.71 Mbp_chr22_30712841_R GTCTCGTGGGCTCGGACCAGGGCTCCTTCCTTTAC 59.0 0.02
mm4__chr16 14.37 Mbp_chr16_14372617_F TCGTCGGCAGCGTCAGCAGCCCCACACAAAGG 60.2 0.02
mm4__chr16 14.37 Mbp_chr16_14372617_R GTCTCGTGGGCTCGGAAGTGGAGCTGCCTGCAG 59.9 0.02
mm3__chr13 44.30 Mbp_chr13_44304516_F Primer3: not found at this Tm N.d. 0.02
mm3__chr13 44.30 Mbp_chr13_44304516_R Primer3: not found at this Tm N.d. 0.02
mm4__chr14 59.74 Mbp_chr14_59741172_F Primer3: not found at this Tm N.d. 0.02
mm4__chr14 59.74 Mbp_chr14_59741172_R Primer3: not found at this Tm N.d. 0.02
mm4__chr6 128.51 Mbp_chr6_128510172_F TCGTCGGCAGCGTCCCTCAACCACTGTCTACACCC 59.9 0.02
mm4__chr6 128.51 Mbp_chr6_128510172_R GTCTCGTGGGCTCGGAGTTGAGGCCAGGGGATAGT 59.9 0.02
mm4__chr16 30.33 Mbp_chr16_30334349_F TCGTCGGCAGCGTCGGGTGCCCAAAGAGTTCACT 60.1 0.02
mm4__chr16 30.33 Mbp_chr16_30334349_R GTCTCGTGGGCTCGGGGTCTTGGGCGATGGAAGTT 60.3 0.02
mm4__chr16 29.59 Mbp_chr16_29594261_F TCGTCGGCAGCGTCGGGTGCCCAAAGAGTTCACT 60.1 0.02
mm4__chr16 29.59 Mbp_chr16_29594261_R GTCTCGTGGGCTCGGGGTCTTGGGCGATGGAAGTT 60.3 0.02
mm4__chr16 22.44 Mbp_chr16_22438069_F Primer3: not found at this Tm N.d. 0.02
mm4__chr16 22.44 Mbp_chr16_22438069_R Primer3: not found at this Tm N.d. 0.02
mm4__chr16 21.50 Mbp_chr16_21501148_F Primer3: not found at this Tm N.d. 0.02
mm4__chr16 21.50 Mbp_chr16_21501148_R Primer3: not found at this Tm N.d. 0.02
mm4__chr16 18.93 Mbp_chr16_18925325_F TCGTCGGCAGCGTCGGGTGCCCAAAGAGTTCACT 60.1 0.02
mm4__chr16 18.93 Mbp_chr16_18925325_R GTCTCGTGGGCTCGGGGTCTTGGGCGATGGAAGTT 60.3 0.02
mm4__chr12 119.59 Mbp_chr12_119593827_F TCGTCGGCAGCGTCTTTTCAGAGCCTCGCCACAA 60.1 0.01
mm4__chr12 119.59 Mbp_chr12_119593827_R GTCTCGTGGGCTCGGAAAGCCCTCTTGAAGTCCGG 59.9 0.01
mm4__chr20 1.16 Mbp_chr20_1160628_F TCGTCGGCAGCGTCGCTCCTCCACCGATCACAAT 59.8 0.01
mm4__chr20 1.16 Mbp_chr20_1160628_R GTCTCGTGGGCTCGGGGGAAACATGGTTCCAGGGG 60.6 0.01
mm4__chr17 81.51 Mbp_chr17_81512286_F TCGTCGGCAGCGTCCCCGACGATGGAAGGAAACA 60.0 0.01
mm4__chr17 81.51 Mbp_chr17_81512286_R GTCTCGTGGGCTCGGCGCTGGTCATTGACAATGGC 60.1 0.01
mm4__chr3 50.40 Mbp_chr3_50396001_F TCGTCGGCAGCGTCCAAACCCTCTCACCCCACAG 60.2 0.01
mm4__chr3 50.40 Mbp_chr3_50396001_R GTCTCGTGGGCTCGGGAGAGAGGAGGGTGTGGGTC 60.9 0.01
mm4__chr8 128.22 Mbp_chr8_128217004_F TCGTCGGCAGCGTCAGTGGAATACAGCATTTTGTTCAA 57.5 0.01
mm4__chr8 128.22 Mbp_chr8_128217004_R GTCTCGTGGGCTCGGGGGAGAGAGACGGAGACCTT 60.0 0.01
mm4__chr1 204.62 Mbp_chr1_204623599_F TCGTCGGCAGCGTCAGCTCTTTCCAGGATGCAGC 60.3 0.01
mm4__chr1 204.62 Mbp_chr1_204623599_R GTCTCGTGGGCTCGGCAGCTCCCCGGTAGAAACTG 60.1 0.01
mm4__chr22 19.88 Mbp_chr22_19876541_F TCGTCGGCAGCGTCCACGATGAACAACATGCCCC 59.8 0.00
mm4__chr22 19.88 Mbp_chr22_19876541_R GTCTCGTGGGCTCGGGCCCGCTCATTTCCCTATCT 59.6 0.00
mm4__chr22 31.35 Mbp_chr22_31346467_F TCGTCGGCAGCGTCAAAGAAACGGCGAGCTCAGA 59.9 0.00
mm4__chr22 31.35 Mbp_chr22_31346467_R GTCTCGTGGGCTCGGTGTAAAGTTTGCAGCGCCAG 59.6 0.00
mm4__chr16 763.02 Kbp_chr16_763018_F Primer3: not found at this Tm N.d. 0.00
mm4__chr16 763.02 Kbp_chr16_763018_R Primer3: not found at this Tm N.d. 0.00
mm4__chr14 100.82 Mbp_chr14_100824537_F TCGTCGGCAGCGTCTTCTTGACGTCTGTGGCTGG 60.2 0.00
mm4__chr14 100.82 Mbp_chr14_100824537_R GTCTCGTGGGCTCGGCCCCTTTACAGCCTGTGGAG 60.0 0.00
mm4__chr10 98.03 Mbp_chr10_98025960_F TCGTCGGCAGCGTCCAGGGAAAGAGGCAAGGAGG 60.0 0.00
mm4__chr10 98.03 Mbp_chr10_98025960_R GTCTCGTGGGCTCGGCCAGTGAGTGAGCCTGAGTG 60.0 0.00
mm4__chr8 74.05 Mbp_chr8_74053027_F Primer3: not found at this Tm N.d. 0.00
mm4__chr8 74.05 Mbp_chr8_74053027_R Primer3: not found at this Tm N.d. 0.00
mm4__chr19 30.65 Mbp_chr19_30653770_F TCGTCGGCAGCGTCGGTGTGGCTCTTCCCTTCTC 60.0 0.00
mm4__chr19 30.65 Mbp_chr19_30653770_R GTCTCGTGGGCTCGGGTGACCCTCTTTTCCTGGGG 59.9 0.00
mm4__chr3 46.99 Mbp_chr3_46985628_F Primer3: not found at this Tm N.d. 0.00
mm4__chr3 46.99 Mbp_chr3_46985628_R Primer3: not found at this Tm N.d. 0.00
mm4__chr18 35.52 Mbp_chr18_35521587_F TCGTCGGCAGCGTCTCTTAGCCCCTTCAGGAGCT 59.9 0.00
mm4__chr18 35.52 Mbp_chr18_35521587_R GTCTCGTGGGCTCGGCCTTCAAACCTCAGTTTCCAGC 59.7 0.00
mm4__chr19 11.25 Mbp_chr19_11254970_F Primer3: not found at this Tm N.d. 0.00
mm4__chr19 11.25 Mbp_chr19_11254970_R Primer3: not found at this Tm N.d. 0.00
mm4__chr1 112.56 Mbp_chr1_112556687_F Primer3: not found at this Tm N.d. 0.00
mm4__chr1 112.56 Mbp_chr1_112556687_R Primer3: not found at this Tm N.d. 0.00
mm4__chr4 147.96 Mbp_chr4_147964309_F Primer3: not found at this Tm N.d. 0.00
mm4__chr4 147.96 Mbp_chr4_147964309_R Primer3: not found at this Tm N.d. 0.00
mm4__chr5 179.47 Mbp_chr5_179469957_F Primer3: not found at this Tm N.d. 0.00
mm4__chr5 179.47 Mbp_chr5_179469957_R Primer3: not found at this Tm N.d. 0.00
mm4__chr12 132.21 Mbp_chr12_132214617_F Primer3: not found at this Tm N.d. 0.00
mm4__chr12 132.21 Mbp_chr12_132214617_R Primer3: not found at this Tm N.d. 0.00
mm4__chr13 29.51 Mbp_chr13_29506195_F TCGTCGGCAGCGTCCTGGACTTGGGAGCTCAGTG 60.0 0.00
mm4__chr13 29.51 Mbp_chr13_29506195_R GTCTCGTGGGCTCGGAACTGAAGGCCATCGGGATG 60.1 0.00
mm4__chr18 37.43 Mbp_chr18_37431816_F Primer3: not found at this Tm N.d. 0.00
mm4__chr18 37.43 Mbp_chr18_37431816_R Primer3: not found at this Tm N.d. 0.00
mm4__chr7 37.18 Mbp_chr7_37179561_F Primer3: not found at this Tm N.d. 0.00
mm4__chr7 37.18 Mbp_chr7_37179561_R Primer3: not found at this Tm N.d. 0.00
mm4__chr11 108.02 Mbp_chr11_108017559_F Primer3: not found at this Tm N.d. 0.00
mm4__chr11 108.02 Mbp_chr11_108017559_R Primer3: not found at this Tm N.d. 0.00
mm3__chr3 49.96 Mbp_chr3_49955043_F Primer3: not found at this Tm N.d. 0.00
mm3__chr3 49.96 Mbp_chr3_49955043_R Primer3: not found at this Tm N.d. 0.00
mm4__chr9 107.13 Mbp_chr9_107134579_F Primer3: not found at this Tm N.d. 0.00
mm4__chr9 107.13 Mbp_chr9_107134579_R Primer3: not found at this Tm N.d. 0.00
mm4__chr4 182.46 Mbp_chr4_182455846_F Primer3: not found at this Tm N.d. 0.00
mm4__chr4 182.46 Mbp_chr4_182455846_R Primer3: not found at this Tm N.d. 0.00
mm4__chr17 8.78 Mbp_chr17_8783107_F Primer3: not found at this Tm N.d. 0.00
mm4__chr17 8.78 Mbp_chr17_8783107_R Primer3: not found at this Tm N.d. 0.00
mm4__chr2 11.17 Mbp_chr2_11167990_F Primer3: not found at this Tm N.d. 0.00
mm4__chr2 11.17 Mbp_chr2_11167990_R Primer3: not found at this Tm N.d. 0.00
mm4__chr1 52.29 Mbp_chr1_52292753_F Primer3: not found at this Tm N.d. 0.00
mm4__chr1 52.29 Mbp_chr1_52292753_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_5529589 CACGATGGAGGGGAAGACGGCCCGGGGGGCATCGTCGCCCGCGAAGCCGGCCTTGCACATGCCGGAGCCGTTGTCGACGA
CGAGCGCGGCGATATCATCATCCATGGTGAGCTGCGAGAATAGC
mm0__chr22 41.08 Mbp_chr22_41075171 ATGCCCACCATCATGACCTGGTGCCTGGTGCACCCCACGATGGAAGGGAAGATGGCCCAGGGGACATCGTCACCCGCGAA
GCCGGCCTTGCACATGCCAGAGCTGTTGTCAACAACGAGCGCAGCAATA
mm2__chr3 175.98 Mbp_chr3_175978511 GAGTCCTTCTGACCCATGCCCACCATCACACCTTGGTGCCTGGGGCGCCCCACGATGGATGGGAAGACGGCCCCGGAGGC
ATCGTCGCCTGCGAAGCTGGTCTTGCACATACAGGAGCCTTTGCTGACTACAAGCC
mm1__chr5 98.34 Mbp_chr5_98338788 GCTCCTCATCAACAAGGGCTCTGGCATGTGCAAGGCCGGCTTCACAGGTGACAATGCCCCCGGGCCATCTTCCCCTCTGT
CATGGGTGCCAGGGAGTGATGGTGGGCATGGGTCAAAA
mm2__chr5 77.78 Mbp_chr5_77784931 ATATCACCGCGCTCGTCATTGACAACGGCTCCGGCATGTGCAAGGCCAGCTTCACGGGCGACAATGCCGCCCGGGCAGTC
TTCCCCTCCATCGTT
mm1__chr9 100.73 Mbp_chr9_100731284 GCCAGCTCACCATGGATGATGATATCGCCCCACTTGTCATTGACAACGGCTCAGGCATGTGCAAGGCCGGCTTTGCAGGT
GATAATGTCCCCCTGGGCCATCTTCCCCCTCCATCGTGGAGCTCCCTAG
mm1__chr22 15.72 Mbp_chr22_15721531 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCAGGTGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATCGTGGGGTGCCCCAGGCACCAGAACATGAT
mm1__chr2 131.63 Mbp_chr2_131626183 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCGGGCGACGATGCCCCCCAGGCTGTCTTCCCTTC
TATCGTGGGGCGCCCCAGGCACCAGGGCATGATGGAGGGCATGCATCAGAAGGAGT
mm1__chr2 131.26 Mbp_chr2_131263600 TGGATGATGATACCGCCGTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCGGGCGACGATGCCCCC
CGGGCTGTCTTCCCTTCCATC
mm1__chr2 130.66 Mbp_chr2_130656794 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCGGGCGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATC
mm1__chr2 130.46 Mbp_chr2_130463875 GATGGAAGGGAAGACAGCCCGGGGGGCATCGTCGCCCGCAAAGCCGGCCTTGCACATGCCAGAGCCGTTGTCAATGACGA
GCAC
mm1__chr2 130.08 Mbp_chr2_130075303 GATGGAAGGGAAGACAGCCCGGGGGGCATCGTCGCCCGCAAAGCCGGCCTTGCACATGCCAGAGCCGTTGTCAATGACGA
GCAC
mm1__chr14 19.40 Mbp_chr14_19402840 ATCATGTTCTGGTGCCTGGGGCACCCCACGATGGAAGGGAAGACAGCCCGGGGGGCATCGTCACCTGCAAAGCCGGCCTT
GCACATGCCAGAGCCGTTGTCAATGACGAGCAC
mm1__chr14 19.00 Mbp_chr14_18998912 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCAGGTGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATCGTGGGGTGCCCCAGGCACCAGAACATGAT
mm2__chr2 73.90 Mbp_chr2_73901359 GTGTGAAGAGGAGACCACCGCGCTCGTGTGTGACAATGGCTCTGGCCTGTGCAAGGCAGGCTTCGCAGGAGATGATGCCC
CCCGGGCTGTCTTCCCCTCCATTGTGGG
mm2__chr15 43.99 Mbp_chr15_43990116 AATGAAGGGGAAGATGGCCCGGGGTGGGCATCGTCACCTGCAAAGCTGGCCTTGCACATGCCAGAGCCATTGTCGACGAC
AAGCATGGTGATATCATCATCCATGGTGAGCTGGC
mm2__chr3 180.82 Mbp_chr3_180820588 AATGATATCGCCACGCTCGTCATGGACAATGGCTCTCCCATGTGCAAGGCCAGCTTAGCAGGCGACGATGCCCCTCCATC
GTGAGGCACCCATGGCACCAGGGCATGATCGTGGGCATGGGTCAGAAGAA
mm2__chr18 62.44 Mbp_chr18_62442053 CCTCGTCATCGACAATGGCTCTGGCATGTGCAGGGCTGGCTTCGCAGGCGACAGTGCTCTCCAGGCCGTCTTCCTCTCCA
TCATGGGGCACCCCAGGCACCAGGGTGTGATGGTGGGCATGGGTCAGAAGGACTC
mm2__chr1 223.86 Mbp_chr1_223864783 TGACCCATGCTCACCATCACGCCCTGGTGCCTGGGGCGCCCCACCATGGAAGGGAAGATGGCCCAGGGGTCATCATCCCC
TGTGAAGCCAGCCTTGCACATGCCGGAGCTGTTGTCAATGACGAGCG
mm2__chr9 6.83 Mbp_chr9_6834500 CCGCTACCAGCTCACCATAGATGATGATATTGCTACGCCCGTCGTCGACAACGGCTCCGGCATGTGGAAGGCTGGCTTCG
CAGGTGACGATGACCCCCGGCCGTCTTCCCCTTCATCGTGT
mm4__chr8 42.34 Mbp_chr8_42335144 GCCGTGTTTGACACTTCAGCAAAACTGCAATTTAAGTTATTAACTTTATTGAGTACTTACGTGGAAACAAAAATTAAGTC
CCTTCTCCCGTGGAGCTGGCATTGCACATTGGTGGGAGGAGGAGTGAGCAGGGA
mm4__chr11 8.20 Mbp_chr11_8201792 GTCAGCTTTCCATGGGCAACCTGTGAGCAAGGCAGGCTTCTCAGGGTTTCATGGATTTTCTCAAAGCCCCTAGGGTTCCT
CTTGCATTTCCTCCAATCAGGACCCAATTCCTAGTTTTCAAGGAAATGAAGCAAGGCTGC
mm3__chrY 17.76 Mbp_chrY_17758057 AACGGTGGAGGGAAACATGGCTTGGGGAGCATCGTCCCCTGCAAAGCCAGCTTTGCACATGCAAGAGCCATTGTCAATGA
CGAGCGCAGCGATCTCTTCTTCTACTGCGATGGACAGAGGAGTGGGACAGAGGA
mm3__chrX 53.14 Mbp_chrX_53143845 GATGGAGGGGAACACAGCTCAGGGGCCATCCATCCCCAGCAAAGCCAGCTTTGCACATGCCAGAGCCATTGTCAATGATG
AGCGCGGCGATCTCTATTTCCATTGCAACCTGTGGAAGAGCA
mm3__chr5 61.83 Mbp_chr5_61832977 CCATCATCATGCCCTGGTGTCAGGGGTGCCCAACGATGGAGGGGGAACATGGGTTGGGGGACGTTGTGTCCAGCAAAGCC
AGCTTTGCACATGCTGGAGCCATTGTCAATGACCAGCC
mm3__chr2 57.76 Mbp_chr2_57764997 AGATTGCTGGCTCGTCAATGATAGTGGCTCTGGCATGTGCAAAGCTGGCTTTGCTGGGGAAGACACCCCCTGAGCCATGT
TTCTCTCCATCGTCAGGTGCCCCTGGCACCACAGTGTGATAGTGGGCATGGGCAAGAAG
mm3__chr1 237.93 Mbp_chr1_237926875 CTCCTCCACCAGTCACGATGGAAGAAGAGATCGCCACGCTTGCCATTGACAATGGCTCCAGCATGTGCAAAGCTGGCTTT
GCTGGGGACGATGCCCCCCAAGCTGTGTTTCCCTCCA
mm4__chr3 139.49 Mbp_chr3_139493859 TGCCGGTCACAATGGAAGAAGAAATCACCATGCTTTTCATTGACATTGGCTCCAGCATGTACAAAGCTGGCTTTGCTGGG
GTGATGCTTCCCGAGCCATGTTCCCTTCCAT
mm4__chr4 153.93 Mbp_chr4_153925779 ACAGCTCTCTTCTATGGCCCTAGCACTGTATGTGCCAGACAGGCTTTGCGGGAGTGTGCAGGGGATGAAAGTGA
mm4__chr7 44.77 Mbp_chr7_44765386 GAGATCACCATCGACCCCACGTGCAGCTGGAAGCCAGTGCCCGTGAAGCCTGACATGCACATCAAGGAGGAGCCGGATGG
GCCAGCACTGAAG
mm4__chr19 58.56 Mbp_chr19_58563367 GGGTCCTGTTCACTCCTCAGATCGCTGGGGAGCAGAAGCGCATGCGCAAAGCCACCTTCGCGGGAGGGTGATTGGATCTG
GCCAGAAAGGCCAGCCATGCCGAGGTCCCAGGGGACGTGGAGGTGAGGGCTTACAC
mm4__chr17 17.12 Mbp_chr17_17116301 CAGGGAGCACAGGACAATGATCCAGGAGGGGAGATGTGCCAGGCAGGCCTCTCCGGCAGGACAGTGATAAAGGAGGCTGC
TCTGTGC
mm4__chr15 82.73 Mbp_chr15_82727357 GGTGCCTGACAATGGAGAGGAACATGACTTGAGGGCATTGTCCCCAGCAAAGGCAGACTTGCACATGGCAAAGCTATTGT
CAACAATGAGCAAGGTGATTTCTGCTTCCATTGTGATCTGTCGGGG
mm4__chr5 173.17 Mbp_chr5_173168160 TCTACAGGATGCTCAGCCATAATTCAAAAGTTAAATGTGCAATGCAGGCCTCCCAGGCAAGCTCCAGACCCTGATCAGCT
CCAC
mm4__chr1 21.88 Mbp_chr1_21879062 GGGAGGCATCGATGTATGGGCAAGGGCAGGGCCGGCAGGAAGTGGCCGTGGCCTTCATGGCGTCCCCAAAGAAGCCAGCC
TTGCACTTGTTGCACTGTGGCCCCTCCGTGTTGTGCTGGCAATTCT
mm4__chr19 54.55 Mbp_chr19_54549610 ACTGAGCAGAAGCCGGTAACACACCAGGGAAGACGGCCTTGCCCACGGGGTGGCTGTTGACGGAATCTTTCTGTTCTGCG
TTCTCTCATCATGGATGTGGGTCCCTTTGATGCCTCTGTCTTCGCTC
mm4__chr19 9.52 Mbp_chr19_9518194 GCTGTCAGCTCACCATGGATGATGATATTGAGGTGCTTGTAGTTAACAATGGCTCCGGCATGTGCAAGGTCAACTTCGTG
GGCGACAATGCCCCCCGGGCCATCTTCCCCTCCATCGTGG
mm4__chrX 118.18 Mbp_chrX_118180104 ACAGCATCTACCCCTCACCTCTCTTGACTTTATTCCTGATAATCCGGCCCTGCACATACAGCTATCAACAATTAGTTTTT
TTGGAGCCTCACAGTTTTCGG
mm4__chr2 133.73 Mbp_chr2_133727373 TCAAAGCCGTCTCTCCTCCTAATCCCACCTGCCAGGCTGGCCTTGCCCATGACAGCATCCTCTCAGGGCTTTCTCCCAGA
CTTAAAAATACGGACTCTTAGAAACCGCCCC
mm4__chrX 46.29 Mbp_chrX_46289060 TGGAGGGGAAGACAACTGGGGGGCATCATCGCCCATGAAGGCAGCCTTGCACATGCCAGAGCCTTTGTTGAAGACGAGAG
CAGTGATATCATCATTCATGGTGATCTGGCAGTGGGTGTGGACTGGTGATGGAG
mm4__chr13 97.63 Mbp_chr13_97630877 ATGTCCAGGGTGCACCATTCACACTGTATGCTATGTCATGGCCTGCCAGGCCTGCCCTGCACATTGAATGCTGGGGGAAG
TTACCCCTGAAGTTGTGCAATCTCAGGGCT
mm4__chr2 74.74 Mbp_chr2_74744085 TGCCTCAAGGAGGGAAATCTCAGACCCTGGAAAGCAGGCATTGCACATGAAAATGAAGAATGGGCTGAGTGAGCACATGG
CAGCGCCGTGTTGGGTTCCAGCTCTGA
mm4__chr5 144.40 Mbp_chr5_144403981 TGTAGGAGGGGCTGGCAATAATATGAGTGGCAGAGAGCTAGGCCTGGGAAGCAGGCCGTGCGCATCCCCCCAGGCCCTTA
TTTCATGGGATATGCCTCTGGAAGGGTGGA
mm4__chr5 131.66 Mbp_chr5_131660047 ATGCCCATCATCACACCCTGGTGCCTCGGGTGCCCCATTATGGAGGGGAAGACGGCCCGGGGGCATCGTTGCCCGTGAAG
CAGACCTTCCACATGCCAGAGCCATTGTCGACGACA
mm4__chr8 143.71 Mbp_chr8_143707191 AGGTGGGCTGGGAGAAGGCCGGCCGCTCCCAGAGCGGCGGGCCTCCGGGGCCCCTGCGCAGCCAGCCGTGCACACGCGCC
AGGTCCCGCGTGTCCTCGTGCTCGCGGTGCAGTTGCTC
mm3__chr5 57.48 Mbp_chr5_57482636 GTCGAGGACGCCCTATCATGGAGGGGAACACAGCCCGGGGGGCATCGTCACCACCAAAGCCTGCCTTGCACATCCCTGAC
CCATTATCCACTACCAAGGCAGACAGCTCATTGTCAGTCATGGTGCTGGCTGAGATCTTC
mm4__chr22 30.71 Mbp_chr22_30712841 ACAGGTTGTATCTTGGGGTCATTATGGACATAACCTCAGCTCTTTATTCTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCAGTAAAGGAAGGAGCCCTGGT
mm4__chr16 14.37 Mbp_chr16_14372617 AGCAGCCCCACACAAAGGAAGTGCAAGGCCGCCTTGGAGGGCAACGGCTCCCCTGGGCCTCCCCTCCCCTGCCTGCAGGC
AGCTCCACTT
mm4__chr6 128.51 Mbp_chr6_128510172 CCTCAACCACTGTCTACACCCCTATGTGCCAGGCCAGCTGCCCTGGCCATTGAAGGTCCATTACGGACCATTAAAGTGCC
TGGAGACTATCCCCTGGCCTCAACT
mm4__chr16 30.33 Mbp_chr16_30334349 GGGTGCCCAAAGAGTTCACTCAAGTGTCCAGGTATGAATTACGATTCACCAGAGTAACCGGCCTTGCACTTAGGGAAAAC
TTCCATCGCCCAAGACC
mm4__chr16 29.59 Mbp_chr16_29594261 GGGTGCCCAAAGAGTTCACTCAAGTGTCCAGGTATGAATTACGATTCACCAGAGTAACCGGCCTTGCACTTAGGGAAAAC
TTCCATCGCCCAAGACC
mm4__chr16 18.93 Mbp_chr16_18925325 GGGTGCCCAAAGAGTTCACTCAAGTGTCCAGGTATGAATTACGATTCACCAGAGTAACCGGCCTTGCACTTAGGGAAAAC
TTCCATCGCCCAAGACC
mm4__chr12 119.59 Mbp_chr12_119593827 TTTTCAGAGCCTCGCCACAAGCCGGCGGCCAGAGCCCCAGACCACACAGACCGTGCGCTCCTCCGCCCTCCCGGCGCCGC
CGGCCTCGCCCATGTCTCAGTACGCCCCTAGCCCGGACTTCAAGAGGGCTTT
mm4__chr20 1.16 Mbp_chr20_1160628 GCTCCTCCACCGATCACAATGGAAGAAGAGATCACCATACTCGTCATTGACAATGGCTCCAGCATGTGCAAAGCTGGTTT
TGCTGGGGACGACGCCCCTGGAACCATGTTTCCC
mm4__chr17 81.51 Mbp_chr17_81512286 CCCGACGATGGAAGGAAACACGGCTCGGGGAGCGTCGTCCCCAGCAAAACCAGCTTTGCACATGCCGGAGCCATTGTCAA
TGACCAGCG
mm4__chr3 50.40 Mbp_chr3_50396001 CAAACCCTCTCACCCCACAGAGCTGGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
CCACCCTTAACTGCAAGGCCTGCTTGGCTGGGACCCACACCCTCCTCTCTC
mm4__chr8 128.22 Mbp_chr8_128217004 AGTGGAATACAGCATTTTGTTCAAATACCTTCTCCAGGTCAGATGTGCAAGTCCTGTTTCTCTGGTATAATGATTCTCAA
TTTGTTTTCTTACAATTTTGAGAGTACAATCCCTTACCAAGGTCTCCGTCTCTCTCCC
mm4__chr1 204.62 Mbp_chr1_204623599 AGCTCTTTCCAGGATGCAGCTCAGAGCTGCCCTCTCACCTGCCATCACCACCTAAGGCTGCCTTGCACATGGCCCGCTCA
TGCAGGCTGATTAGCAGTTTCTACCGGGGAGCTG
mm4__chr22 19.88 Mbp_chr22_19876541 CACGATGAACAACATGCCCCCCGGTCAGCCTGGCTCTGCAGAGCTGGAACAGAACCAGATGTNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNCGTCTCCACCTTCTGGGAGATAGGGAAATGAGCGGGC
mm4__chr22 31.35 Mbp_chr22_31346467 AAAGAAACGGCGAGCTCAGAGTGGGGGCCCCGGCGTCCCCGGCCTTGCACGTGCGCGCCCGGATGCCTAGCCCGGGCCGC
CTGGCGCTGCAAACTTTACA
mm4__chr14 100.82 Mbp_chr14_100824537 TTCTTGACGTCTGTGGCTGGTGCGGGCGTTTCTGCTGTGCAAGGCCTGCTTCCGGGGCTCTAGTCCCTGGGGCTCCTGGC
AAGCTCCACAGGCTGTAAAGGGG
mm4__chr10 98.03 Mbp_chr10_98025960 CAGGGAAAGAGGCAAGGAGGGAGCCCTGCCAAGAAGGCCTTGCCCATCAGCCCAGATATTGCTGTGAGCAGAGGCTGATG
TGCAAACCTGGGCACTCAGGCTCACTCACTGG
mm4__chr19 30.65 Mbp_chr19_30653770 GGTGTGGCTCTTCCCTTCTCCGCCAAGGGGTCCCGCCCAGCCTGCCTTGCTCATAACACAAGAGTTTGCAGACAGGGAAG
TTAGACCCCAGGAAAAGAGGGTCAC
mm4__chr18 35.52 Mbp_chr18_35521587 TCTTAGCCCCTTCAGGAGCTGAGTTACTTTACCTGAATCCTCAGAATCCAGCCTTGCACATGGGATCAAGTTCTCAATAA
ATATTTGCTTTTGATGATAACAACTGAAATACAGAAAGCTGGAAACTGAGGTTTGAAGG
mm4__chr13 29.51 Mbp_chr13_29506195 CTGGACTTGGGAGCTCAGTGCCTCTGCTCTGCAAGGCCGGGTGCGCTGGAGTTGGCTGGAAGGAGGACATAAAAGGTCAT
TCACTCATTTCAACCTGAAAGTGCTTGCTCCCCCCATCCCGATGGCCTTCAGTT

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.