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Contents:

PCR primers for off-targets of GGCCGTCTTCCCCTCCATCG TGG

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_5529551_F TCGTCGGCAGCGTCCTCCCCTACCTGGTGCCT 59.9 1.00
ontarget_mm0__chr7 5.53 Mbp_chr7_5529551_R GTCTCGTGGGCTCGGTGGATGATGATATCGCCGCG 60.4 1.00
mm0__chr11 1.80 Mbp_chr11_1803989_F TCGTCGGCAGCGTCCGCCACCCACATAGAAGTCC 60.4 1.00
mm0__chr11 1.80 Mbp_chr11_1803989_R GTCTCGTGGGCTCGGAACACCTCTGGCATGTGCAA 60.4 1.00
mm1__chr19 9.52 Mbp_chr19_9518232_F TCGTCGGCAGCGTCAGTTAACAATGGCTCCGGCA 59.9 0.86
mm1__chr19 9.52 Mbp_chr19_9518232_R GTCTCGTGGGCTCGGGGAGTCCTTCTGACCGATGC 60.1 0.86
mm3__chr19 30.69 Mbp_chr19_30685760_F TCGTCGGCAGCGTCTAAAGAAATGGCCCCGTGCA 60.2 0.67
mm3__chr19 30.69 Mbp_chr19_30685760_R GTCTCGTGGGCTCGGGATCTCAGCAACGTGGCAGG 61.3 0.67
mm2__chr10 69.02 Mbp_chr10_69022836_F Primer3: not found at this Tm N.d. 0.63
mm2__chr10 69.02 Mbp_chr10_69022836_R Primer3: not found at this Tm N.d. 0.63
mm2__chr22 41.08 Mbp_chr22_41075133_F TCGTCGGCAGCGTCGGAGTCCTTCTGACCCATGC 60.1 0.60
mm2__chr22 41.08 Mbp_chr22_41075133_R GTCTCGTGGGCTCGGTGTTGACAACAGCTCTGGCA 60.1 0.60
mm2__chr22 15.72 Mbp_chr22_15721569_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr22 15.72 Mbp_chr22_15721569_R GTCTCGTGGGCTCGGATCATGTTCTGGTGCCTGGG 60.0 0.56
mm2__chr2 131.26 Mbp_chr2_131263638_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr2 131.26 Mbp_chr2_131263638_R GTCTCGTGGGCTCGGCTCTTTCTGATGCATGCCCC 58.9 0.56
mm2__chr2 130.66 Mbp_chr2_130656832_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr2 130.66 Mbp_chr2_130656832_R GTCTCGTGGGCTCGGCTCTTTCTGATGCATGCCCC 58.9 0.56
mm2__chr2 130.46 Mbp_chr2_130463837_F TCGTCGGCAGCGTCCTCTTTCTGATGCATGCCCC 58.9 0.56
mm2__chr2 130.46 Mbp_chr2_130463837_R GTCTCGTGGGCTCGGGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr2 130.08 Mbp_chr2_130075265_F TCGTCGGCAGCGTCCTCTTTCTGATGCATGCCCC 58.9 0.56
mm2__chr2 130.08 Mbp_chr2_130075265_R GTCTCGTGGGCTCGGGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr14 19.40 Mbp_chr14_19402802_F TCGTCGGCAGCGTCATCATGTTCTGGTGCCTGGG 60.0 0.56
mm2__chr14 19.40 Mbp_chr14_19402802_R GTCTCGTGGGCTCGGGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr14 19.00 Mbp_chr14_18998950_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.56
mm2__chr14 19.00 Mbp_chr14_18998950_R GTCTCGTGGGCTCGGATCATGTTCTGGTGCCTGGG 60.0 0.56
mm2__chr18 62.44 Mbp_chr18_62442091_F TCGTCGGCAGCGTCCCTCGTCATCGACAATGGCT 60.1 0.50
mm2__chr18 62.44 Mbp_chr18_62442091_R GTCTCGTGGGCTCGGGAGTCCTTCTGACCCATGCC 60.1 0.50
mm3__chr10 129.19 Mbp_chr10_129192605_F TCGTCGGCAGCGTCTGGTGACAGCACAGCAGTAG 59.9 0.48
mm3__chr10 129.19 Mbp_chr10_129192605_R GTCTCGTGGGCTCGGTGGCAAGATCCAATCTGCCC 60.3 0.48
mm1__chr6 88.28 Mbp_chr6_88276901_F TCGTCGGCAGCGTCGAGTCCTTCTGACCCATGCC 60.1 0.46
mm1__chr6 88.28 Mbp_chr6_88276901_R GTCTCGTGGGCTCGGTGGATGATGCTATCACCGCG 60.3 0.46
mm4__chr10 99.97 Mbp_chr10_99969113_F TCGTCGGCAGCGTCGTTGTCGAAACGGGCAGACT 60.8 0.42
mm4__chr10 99.97 Mbp_chr10_99969113_R GTCTCGTGGGCTCGGAGAGAGGCTGTTTGTGTGCA 59.8 0.42
mm4__chr12 98.63 Mbp_chr12_98630800_F Primer3: not found at this Tm N.d. 0.41
mm4__chr12 98.63 Mbp_chr12_98630800_R Primer3: not found at this Tm N.d. 0.41
mm2__chr5 131.66 Mbp_chr5_131660010_F TCGTCGGCAGCGTCATGCCCATCATCACACCCTG 60.1 0.40
mm2__chr5 131.66 Mbp_chr5_131660010_R GTCTCGTGGGCTCGGTGTGGAAGGTCTGCTTCACG 60.2 0.40
mm1__chr3 175.98 Mbp_chr3_175978473_F TCGTCGGCAGCGTCGAGTCCTTCTGACCCATGCC 60.1 0.38
mm1__chr3 175.98 Mbp_chr3_175978473_R GTCTCGTGGGCTCGGGCAAAGGCTCCTGTATGTGC 59.5 0.38
mm4__chr10 129.58 Mbp_chr10_129579158_F Primer3: not found at this Tm N.d. 0.37
mm4__chr10 129.58 Mbp_chr10_129579158_R Primer3: not found at this Tm N.d. 0.37
mm2__chr2 73.90 Mbp_chr2_73901397_F TCGTCGGCAGCGTCAGGCTTCGCAGGAGATGATG 59.8 0.36
mm2__chr2 73.90 Mbp_chr2_73901397_R GTCTCGTGGGCTCGGTATCCAGATGAGCACGCACC 59.8 0.36
mm4__chr2 73.04 Mbp_chr2_73044956_F TCGTCGGCAGCGTCGGTGGGAAGAGGGCAGGATA 60.6 0.34
mm4__chr2 73.04 Mbp_chr2_73044956_R GTCTCGTGGGCTCGGTCCGATGACTCTTCCTCAGC 58.8 0.34
mm4__chr1 178.50 Mbp_chr1_178498817_F TCGTCGGCAGCGTCCCCTACCCCTTCTCACCCTT 60.2 0.33
mm4__chr1 178.50 Mbp_chr1_178498817_R GTCTCGTGGGCTCGGTCCCCTCTTTCTCTTTTGCCC 59.9 0.33
mm3__chr19 14.20 Mbp_chr19_14197724_F Primer3: not found at this Tm N.d. 0.31
mm3__chr19 14.20 Mbp_chr19_14197724_R Primer3: not found at this Tm N.d. 0.31
mm4__chr6 169.98 Mbp_chr6_169982313_F TCGTCGGCAGCGTCGGAAGGACACGGGAAGGAAA 59.6 0.30
mm4__chr6 169.98 Mbp_chr6_169982313_R GTCTCGTGGGCTCGGCGTCACCATCACACACAGCA 60.8 0.30
mm3__chr11 50.00 Mbp_chr11_49996390_F Primer3: not found at this Tm N.d. 0.30
mm3__chr11 50.00 Mbp_chr11_49996390_R Primer3: not found at this Tm N.d. 0.30
mm4__chr8 72.27 Mbp_chr8_72268162_F Primer3: not found at this Tm N.d. 0.29
mm4__chr8 72.27 Mbp_chr8_72268162_R Primer3: not found at this Tm N.d. 0.29
mm4__chr20 3.65 Mbp_chr20_3646514_F Primer3: not found at this Tm N.d. 0.28
mm4__chr20 3.65 Mbp_chr20_3646514_R Primer3: not found at this Tm N.d. 0.28
mm4__chr13 27.88 Mbp_chr13_27881645_F Primer3: not found at this Tm N.d. 0.27
mm4__chr13 27.88 Mbp_chr13_27881645_R Primer3: not found at this Tm N.d. 0.27
mm4__chr12 56.61 Mbp_chr12_56611572_F TCGTCGGCAGCGTCTCAGAGGAAAAGAGGCATTCCC 60.0 0.27
mm4__chr12 56.61 Mbp_chr12_56611572_R GTCTCGTGGGCTCGGGGAGACGTATTGCTACCCCAG 59.9 0.27
mm3__chr17 57.12 Mbp_chr17_57121993_F TCGTCGGCAGCGTCGAGCTCCTCCCAGTTCCAAC 60.0 0.25
mm3__chr17 57.12 Mbp_chr17_57121993_R GTCTCGTGGGCTCGGGTTAACCACACAGGCGAGAA 58.1 0.25
mm4__chr11 48.38 Mbp_chr11_48384230_F Primer3: not found at this Tm N.d. 0.24
mm4__chr11 48.38 Mbp_chr11_48384230_R Primer3: not found at this Tm N.d. 0.24
mm4__chr3 38.55 Mbp_chr3_38554278_F TCGTCGGCAGCGTCTTCTCCGTCCAGCTGACTTG 59.6 0.23
mm4__chr3 38.55 Mbp_chr3_38554278_R GTCTCGTGGGCTCGGCCCTGCGCCACTACTACTTC 60.1 0.23
mm4__chr12 126.88 Mbp_chr12_126884172_F TCGTCGGCAGCGTCCAGGAGTCACAGAGTGGGGA 60.5 0.21
mm4__chr12 126.88 Mbp_chr12_126884172_R GTCTCGTGGGCTCGGCCAGAATAACTCTTGCTTTGGGG 59.5 0.21
mm4__chr2 22.40 Mbp_chr2_22403963_F Primer3: not found at this Tm N.d. 0.21
mm4__chr2 22.40 Mbp_chr2_22403963_R Primer3: not found at this Tm N.d. 0.21
mm3__chr5 1.07 Mbp_chr5_1068509_F TCGTCGGCAGCGTCGCCCAGATTTCTCTAATTTCACACT 59.3 0.20
mm3__chr5 1.07 Mbp_chr5_1068509_R GTCTCGTGGGCTCGGCCTTCCCTTGGCTGCCTTT 60.2 0.20
mm4__chr11 36.67 Mbp_chr11_36666774_F Primer3: not found at this Tm N.d. 0.20
mm4__chr11 36.67 Mbp_chr11_36666774_R Primer3: not found at this Tm N.d. 0.20
mm4__chr11_KI270721v1_random 84.93 Kbp_chr11_KI270721v1_random_84927_F TCGTCGGCAGCGTCGGGTGGGTTCTGTTTGACCA 60.1 0.20
mm4__chr11_KI270721v1_random 84.93 Kbp_chr11_KI270721v1_random_84927_R GTCTCGTGGGCTCGGCCATCCAGGCTGAAGCTCAC 60.7 0.20
mm4__chr11 2.03 Mbp_chr11_2029738_F TCGTCGGCAGCGTCGGGTGGGTTCTGTTTGACCA 60.1 0.20
mm4__chr11 2.03 Mbp_chr11_2029738_R GTCTCGTGGGCTCGGCCATCCAGGCTGAAGCTCAC 60.7 0.20
mm4__chr11 134.39 Mbp_chr11_134389926_F TCGTCGGCAGCGTCAAGGAGCACTGTGGTTTCCC 60.1 0.19
mm4__chr11 134.39 Mbp_chr11_134389926_R GTCTCGTGGGCTCGGGATGGAGTGGGCCTCTGATG 59.8 0.19
mm4__chr12 128.69 Mbp_chr12_128685673_F Primer3: not found at this Tm N.d. 0.18
mm4__chr12 128.69 Mbp_chr12_128685673_R Primer3: not found at this Tm N.d. 0.18
mm4__chr12 45.93 Mbp_chr12_45926788_F Primer3: not found at this Tm N.d. 0.18
mm4__chr12 45.93 Mbp_chr12_45926788_R Primer3: not found at this Tm N.d. 0.18
mm3__chr2 131.63 Mbp_chr2_131626221_F TCGTCGGCAGCGTCGTGCTCGTCATTGACAACGG 59.8 0.17
mm3__chr2 131.63 Mbp_chr2_131626221_R GTCTCGTGGGCTCGGACTCCTTCTGATGCATGCCC 60.1 0.17
mm4__chr13 31.16 Mbp_chr13_31162316_F TCGTCGGCAGCGTCTGGTGTCCGATCCTTAACGC 60.1 0.15
mm4__chr13 31.16 Mbp_chr13_31162316_R GTCTCGTGGGCTCGGATTCCCAACATGCTCTCCGG 60.1 0.15
mm4__chr10 101.83 Mbp_chr10_101829461_F TCGTCGGCAGCGTCAGGGATCCGACTCAGTGCT 59.9 0.15
mm4__chr10 101.83 Mbp_chr10_101829461_R GTCTCGTGGGCTCGGCTGGCTTTTCCCACTCCTCC 60.3 0.15
mm4__chr7 100.49 Mbp_chr7_100486783_F TCGTCGGCAGCGTCAGGGTTGCTGACACCTCTTG 59.8 0.14
mm4__chr7 100.49 Mbp_chr7_100486783_R GTCTCGTGGGCTCGGCCTTACTGGAGCTGGGGAGA 60.3 0.14
mm4__chr18 79.77 Mbp_chr18_79771156_F Primer3: not found at this Tm N.d. 0.13
mm4__chr18 79.77 Mbp_chr18_79771156_R Primer3: not found at this Tm N.d. 0.13
mm4__chr1 25.10 Mbp_chr1_25098832_F TCGTCGGCAGCGTCAGTTCCCACCCAAAAGTGCA 60.0 0.13
mm4__chr1 25.10 Mbp_chr1_25098832_R GTCTCGTGGGCTCGGTGATCATGTGCTGAGGCCAA 59.6 0.13
mm3__chr12 21.72 Mbp_chr12_21717046_F Primer3: not found at this Tm N.d. 0.12
mm3__chr12 21.72 Mbp_chr12_21717046_R Primer3: not found at this Tm N.d. 0.12
mm4__chr13 75.36 Mbp_chr13_75356250_F TCGTCGGCAGCGTCTGGAGACTCCCGGCAGATAA 60.0 0.12
mm4__chr13 75.36 Mbp_chr13_75356250_R GTCTCGTGGGCTCGGGCAAAGAACTGATGTTGCTTTCC 59.2 0.12
mm4__chr17 3.92 Mbp_chr17_3915977_F TCGTCGGCAGCGTCCCTCGTCCCCATCTCAACAG 59.8 0.12
mm4__chr17 3.92 Mbp_chr17_3915977_R GTCTCGTGGGCTCGGTCTGACATCCCTTGCGTGAC 60.0 0.12
mm4__chr13 31.65 Mbp_chr13_31651319_F Primer3: not found at this Tm N.d. 0.11
mm4__chr13 31.65 Mbp_chr13_31651319_R Primer3: not found at this Tm N.d. 0.11
mm4__chr14 96.93 Mbp_chr14_96931954_F TCGTCGGCAGCGTCCGGAAATGCAGGCAAGATGG 59.8 0.11
mm4__chr14 96.93 Mbp_chr14_96931954_R GTCTCGTGGGCTCGGCTGACCGCTGCTTTCAAACC 60.0 0.11
mm4__chr16 53.53 Mbp_chr16_53531501_F TCGTCGGCAGCGTCTCTCCTGGCCTGTTCTGAGA 59.8 0.11
mm4__chr16 53.53 Mbp_chr16_53531501_R GTCTCGTGGGCTCGGTAGGGTGGGTAGTCGTGGTC 60.3 0.11
mm4__chr10 88.95 Mbp_chr10_88948818_F TCGTCGGCAGCGTCCTCACCTGATGTCTGGGACG 59.8 0.11
mm4__chr10 88.95 Mbp_chr10_88948818_R GTCTCGTGGGCTCGGACTGCCTTGGTGTGTGACAA 60.0 0.11
mm3__chr1 219.93 Mbp_chr1_219928680_F TCGTCGGCAGCGTCGCAGTATCTGAACAGCCCGT 60.1 0.11
mm3__chr1 219.93 Mbp_chr1_219928680_R GTCTCGTGGGCTCGGCTCTCTGCACAGTCCTGTCC 59.7 0.11
mm4__chr13 110.82 Mbp_chr13_110820890_F TCGTCGGCAGCGTCGCTCCTGCAGGGAATGACTT 60.0 0.11
mm4__chr13 110.82 Mbp_chr13_110820890_R GTCTCGTGGGCTCGGAGGGTCTAGCCTGAACCAGT 59.8 0.11
mm4__chr8 89.52 Mbp_chr8_89523196_F Primer3: not found at this Tm N.d. 0.10
mm4__chr8 89.52 Mbp_chr8_89523196_R Primer3: not found at this Tm N.d. 0.10
mm4__chr3 73.74 Mbp_chr3_73737267_F TCGTCGGCAGCGTCTCCACGTGTGTTGGCAAAAC 59.8 0.10
mm4__chr3 73.74 Mbp_chr3_73737267_R GTCTCGTGGGCTCGGGGGACCCATGAATGCCAGAA 60.0 0.10
mm3__chr14 103.22 Mbp_chr14_103220206_F TCGTCGGCAGCGTCAACCTGAAGCCCTGGAGATG 59.3 0.10
mm3__chr14 103.22 Mbp_chr14_103220206_R GTCTCGTGGGCTCGGGGTGGGGACGAAGAAGTGAG 60.0 0.10
mm4__chr20 36.86 Mbp_chr20_36863326_F Primer3: not found at this Tm N.d. 0.10
mm4__chr20 36.86 Mbp_chr20_36863326_R Primer3: not found at this Tm N.d. 0.10
mm4__chr17 39.57 Mbp_chr17_39573492_F Primer3: not found at this Tm N.d. 0.10
mm4__chr17 39.57 Mbp_chr17_39573492_R Primer3: not found at this Tm N.d. 0.10
mm4__chr2 226.37 Mbp_chr2_226365075_F TCGTCGGCAGCGTCCGTGGTTGCAGCTGTGTTAT 59.1 0.10
mm4__chr2 226.37 Mbp_chr2_226365075_R GTCTCGTGGGCTCGGCCACTGGGTAACTGGCAGTT 59.8 0.10
mm4__chr1 156.49 Mbp_chr1_156490408_F TCGTCGGCAGCGTCGGCAGGCTCACTACCCAAAT 60.0 0.10
mm4__chr1 156.49 Mbp_chr1_156490408_R GTCTCGTGGGCTCGGAATTAGCTCAGTGCCCAGGC 60.3 0.10
mm4__chr16 5.44 Mbp_chr16_5442563_F TCGTCGGCAGCGTCTCGTAAAGTGGCATGGCAGT 59.9 0.09
mm4__chr16 5.44 Mbp_chr16_5442563_R GTCTCGTGGGCTCGGAAGAGCTGCATCCTCCTCCT 60.3 0.09
mm4__chr2 79.90 Mbp_chr2_79897853_F Primer3: not found at this Tm N.d. 0.09
mm4__chr2 79.90 Mbp_chr2_79897853_R Primer3: not found at this Tm N.d. 0.09
mm4__chr3 69.10 Mbp_chr3_69097737_F TCGTCGGCAGCGTCGCAGAGAGGCCAAGTAGACC 59.8 0.09
mm4__chr3 69.10 Mbp_chr3_69097737_R GTCTCGTGGGCTCGGCCCAACCTTCCCCAATACCC 60.0 0.09
mm4__chr17 30.72 Mbp_chr17_30717969_F Primer3: not found at this Tm N.d. 0.09
mm4__chr17 30.72 Mbp_chr17_30717969_R Primer3: not found at this Tm N.d. 0.09
mm4__chr22 45.67 Mbp_chr22_45674070_F Primer3: not found at this Tm N.d. 0.09
mm4__chr22 45.67 Mbp_chr22_45674070_R Primer3: not found at this Tm N.d. 0.09
mm4__chr2 100.10 Mbp_chr2_100104755_F Primer3: not found at this Tm N.d. 0.09
mm4__chr2 100.10 Mbp_chr2_100104755_R Primer3: not found at this Tm N.d. 0.09
mm4__chr7 128.91 Mbp_chr7_128913637_F TCGTCGGCAGCGTCTGGAGCGGAGGAATATGGGA 60.1 0.09
mm4__chr7 128.91 Mbp_chr7_128913637_R GTCTCGTGGGCTCGGTGGAGTCGGGCATGATCATG 59.8 0.09
mm4__chr7 128.86 Mbp_chr7_128857521_F TCGTCGGCAGCGTCGGCCTGGCTCTACACAGTAC 59.8 0.09
mm4__chr7 128.86 Mbp_chr7_128857521_R GTCTCGTGGGCTCGGGCCAGAGCTGAAGGAGTGAG 60.1 0.09
mm3__chr12 123.40 Mbp_chr12_123402767_F Primer3: not found at this Tm N.d. 0.09
mm3__chr12 123.40 Mbp_chr12_123402767_R Primer3: not found at this Tm N.d. 0.09
mm4__chr19 23.28 Mbp_chr19_23283030_F TCGTCGGCAGCGTCACAGAGGAAGATCCAAGCAGT 58.7 0.09
mm4__chr19 23.28 Mbp_chr19_23283030_R GTCTCGTGGGCTCGGTGTGGCATTGATCTCCCTGG 59.7 0.09
mm3__chr5 168.05 Mbp_chr5_168047122_F TCGTCGGCAGCGTCAGCAACTGTGTCCAGAGTGT 59.1 0.08
mm3__chr5 168.05 Mbp_chr5_168047122_R GTCTCGTGGGCTCGGAGCCCAGATCTTCCAAACGG 60.0 0.08
mm4__chr4 185.22 Mbp_chr4_185222498_F TCGTCGGCAGCGTCCCCTATACCCCTCCCTCTCG 59.9 0.08
mm4__chr4 185.22 Mbp_chr4_185222498_R GTCTCGTGGGCTCGGCACGAAGGGGATATAGGGCG 59.7 0.08
mm4__chr4 1.30 Mbp_chr4_1299340_F Primer3: not found at this Tm N.d. 0.07
mm4__chr4 1.30 Mbp_chr4_1299340_R Primer3: not found at this Tm N.d. 0.07
mm4__chr5 80.94 Mbp_chr5_80936375_F Primer3: not found at this Tm N.d. 0.07
mm4__chr5 80.94 Mbp_chr5_80936375_R Primer3: not found at this Tm N.d. 0.07
mm3__chr15 34.79 Mbp_chr15_34794696_F TCGTCGGCAGCGTCGGGAAGTTTACCTGGTGCCG 60.9 0.07
mm3__chr15 34.79 Mbp_chr15_34794696_R GTCTCGTGGGCTCGGATGTGTGACGACGAGGAGAC 59.4 0.07
mm3__chr1 223.86 Mbp_chr1_223864745_F TCGTCGGCAGCGTCTGACCCATGCTCACCATCAC 60.0 0.07
mm3__chr1 223.86 Mbp_chr1_223864745_R GTCTCGTGGGCTCGGCGCTCGTCATTGACAACAGC 60.1 0.07
mm4__chr1 162.24 Mbp_chr1_162243857_F TCGTCGGCAGCGTCTCATTCTTGCAGGGACCCAC 59.9 0.07
mm4__chr1 162.24 Mbp_chr1_162243857_R GTCTCGTGGGCTCGGATCAGTTCCTGCCACTCACA 58.9 0.07
mm4__chr1 29.33 Mbp_chr1_29325099_F Primer3: not found at this Tm N.d. 0.06
mm4__chr1 29.33 Mbp_chr1_29325099_R Primer3: not found at this Tm N.d. 0.06
mm4__chr20 22.55 Mbp_chr20_22553686_F TCGTCGGCAGCGTCCAGCAGTCACCAAGAGGAGG 60.0 0.06
mm4__chr20 22.55 Mbp_chr20_22553686_R GTCTCGTGGGCTCGGTGCCCCAAATCTCTCAGGAG 59.0 0.06
mm2__chr1 229.43 Mbp_chr1_229433003_F TCGTCGGCAGCGTCGCAGCCTGACCTGGTGTC 60.3 0.06
mm2__chr1 229.43 Mbp_chr1_229433003_R GTCTCGTGGGCTCGGGACGAAGACGAGACCACCG 60.1 0.06
mm4__chr10 53.59 Mbp_chr10_53593869_F Primer3: not found at this Tm N.d. 0.06
mm4__chr10 53.59 Mbp_chr10_53593869_R Primer3: not found at this Tm N.d. 0.06
mm4__chr17 40.61 Mbp_chr17_40612056_F Primer3: not found at this Tm N.d. 0.06
mm4__chr17 40.61 Mbp_chr17_40612056_R Primer3: not found at this Tm N.d. 0.06
mm4__chr1 1.20 Mbp_chr1_1203407_F TCGTCGGCAGCGTCGCCAGGAGTTCCCAGAATGG 60.3 0.06
mm4__chr1 1.20 Mbp_chr1_1203407_R GTCTCGTGGGCTCGGGAGTGGATGCATGCTGGGT 60.0 0.06
mm4__chr12 123.41 Mbp_chr12_123407474_F TCGTCGGCAGCGTCACCAGAGCTGAGCACAAGTG 60.2 0.06
mm4__chr12 123.41 Mbp_chr12_123407474_R GTCTCGTGGGCTCGGTGATCAGTCTTCCTAGGCGA 57.5 0.06
mm4__chr9 95.29 Mbp_chr9_95292460_F Primer3: not found at this Tm N.d. 0.06
mm4__chr9 95.29 Mbp_chr9_95292460_R Primer3: not found at this Tm N.d. 0.06
mm4__chr16 81.04 Mbp_chr16_81035993_F Primer3: not found at this Tm N.d. 0.06
mm4__chr16 81.04 Mbp_chr16_81035993_R Primer3: not found at this Tm N.d. 0.06
mm4__chr7 157.85 Mbp_chr7_157849861_F TCGTCGGCAGCGTCGGGGAGGCCAAACGTGTTAT 60.3 0.05
mm4__chr7 157.85 Mbp_chr7_157849861_R GTCTCGTGGGCTCGGATCTCATGTCGTCCCCAGGA 60.0 0.05
mm4__chr8 84.95 Mbp_chr8_84948671_F TCGTCGGCAGCGTCCTCTGGTATGTGCAAGGCCA 60.0 0.04
mm4__chr8 84.95 Mbp_chr8_84948671_R GTCTCGTGGGCTCGGCAGTCCTTCTGCCCTATGCC 60.1 0.04
mm3__chr16 17.65 Mbp_chr16_17652339_F TCGTCGGCAGCGTCGGCAAGCTATCCCCACCAAT 60.1 0.04
mm3__chr16 17.65 Mbp_chr16_17652339_R GTCTCGTGGGCTCGGTCTGCTTCAAAGACTGCCGA 59.6 0.04
mm4__chrY 12.70 Mbp_chrY_12699478_F Primer3: not found at this Tm N.d. 0.04
mm4__chrY 12.70 Mbp_chrY_12699478_R Primer3: not found at this Tm N.d. 0.04
mm4__chr5 80.30 Mbp_chr5_80302741_F TCGTCGGCAGCGTCCTCTTGCTCTGGGCCTCATC 60.1 0.04
mm4__chr5 80.30 Mbp_chr5_80302741_R GTCTCGTGGGCTCGGTGGCATATGCAAGGCTAGCT 59.5 0.04
mm4__chr1 8.94 Mbp_chr1_8943687_F TCGTCGGCAGCGTCTCTCTCTGACTCTCCAGGGC 60.0 0.04
mm4__chr1 8.94 Mbp_chr1_8943687_R GTCTCGTGGGCTCGGGAGCTCAGAGAAAGCCTGGG 60.1 0.04
mm4__chr7 154.91 Mbp_chr7_154907743_F TCGTCGGCAGCGTCTGTCCTGCAGAGTCAGGGAT 60.2 0.04
mm4__chr7 154.91 Mbp_chr7_154907743_R GTCTCGTGGGCTCGGCATCAGAAGCAGCCCCTTGA 60.0 0.04
mm4__chr5 98.34 Mbp_chr5_98338825_F TCGTCGGCAGCGTCGCTCCTCATCAACAAGGGCT 60.0 0.04
mm4__chr5 98.34 Mbp_chr5_98338825_R GTCTCGTGGGCTCGGTTTTGACCCATGCCCACCAT 60.1 0.04
mm4__chr4 6.52 Mbp_chr4_6521619_F TCGTCGGCAGCGTCGAGTCGTCTCAGGAGCCCTA 60.1 0.04
mm4__chr4 6.52 Mbp_chr4_6521619_R GTCTCGTGGGCTCGGACCAGCTCCTGTGTAAGTGC 59.9 0.04
mm4__chr22 25.97 Mbp_chr22_25965315_F TCGTCGGCAGCGTCTCCCTCTGTACTGGTCAATTTGT 59.3 0.04
mm4__chr22 25.97 Mbp_chr22_25965315_R GTCTCGTGGGCTCGGCCTGGTGGTCTGGTAAAGTCC 59.9 0.04
mm4__chr19 45.50 Mbp_chr19_45497187_F TCGTCGGCAGCGTCACTAAAGGGGCGGAACCAAG 59.9 0.04
mm4__chr19 45.50 Mbp_chr19_45497187_R GTCTCGTGGGCTCGGCCTCTTCCCCTAAAGGCTGC 60.1 0.04
mm4__chr13 20.90 Mbp_chr13_20902474_F TCGTCGGCAGCGTCCCACTATATTCCCACGCCCG 60.3 0.04
mm4__chr13 20.90 Mbp_chr13_20902474_R GTCTCGTGGGCTCGGCTGGAAGTGGAGGAGGAGGT 60.2 0.04
mm4__chr1 5.52 Mbp_chr1_5517048_F TCGTCGGCAGCGTCTGTAAAGGGCTCAGCACAGC 60.6 0.04
mm4__chr1 5.52 Mbp_chr1_5517048_R GTCTCGTGGGCTCGGGCCCAAGCTACTGGTGAACT 59.9 0.04
mm4__chr18 79.77 Mbp_chr18_79771275_F Primer3: not found at this Tm N.d. 0.03
mm4__chr18 79.77 Mbp_chr18_79771275_R Primer3: not found at this Tm N.d. 0.03
mm4__chr20 41.41 Mbp_chr20_41405403_F Primer3: not found at this Tm N.d. 0.03
mm4__chr20 41.41 Mbp_chr20_41405403_R Primer3: not found at this Tm N.d. 0.03
mm4__chr19 49.37 Mbp_chr19_49374720_F TCGTCGGCAGCGTCCCTTGTTCTTCCTCCCCAGG 59.6 0.03
mm4__chr19 49.37 Mbp_chr19_49374720_R GTCTCGTGGGCTCGGGGGGATGGAGTTCTGTGTGG 60.0 0.03
mm4__chr10 10.76 Mbp_chr10_10760593_F Primer3: not found at this Tm N.d. 0.03
mm4__chr10 10.76 Mbp_chr10_10760593_R Primer3: not found at this Tm N.d. 0.03
mm4__chr19 54.14 Mbp_chr19_54141817_F TCGTCGGCAGCGTCTGACTACTCCAGGGTTCCCT 59.2 0.03
mm4__chr19 54.14 Mbp_chr19_54141817_R GTCTCGTGGGCTCGGAGACTTCTGAGATACCAGCGG 58.9 0.03
mm4__chr1 17.86 Mbp_chr1_17856601_F TCGTCGGCAGCGTCGGTGGACTCTGTGTGCTCTC 60.0 0.03
mm4__chr1 17.86 Mbp_chr1_17856601_R GTCTCGTGGGCTCGGTGGAGTGTGCACGCTTATGT 59.9 0.03
mm4__chr19 14.46 Mbp_chr19_14458209_F Primer3: not found at this Tm N.d. 0.03
mm4__chr19 14.46 Mbp_chr19_14458209_R Primer3: not found at this Tm N.d. 0.03
mm4__chr2 124.03 Mbp_chr2_124034376_F TCGTCGGCAGCGTCCAGTGTAGGGCAAGGACAGC 60.6 0.03
mm4__chr2 124.03 Mbp_chr2_124034376_R GTCTCGTGGGCTCGGCAGTGACTCACCCATCCGAT 59.1 0.03
mm3__chr15 43.99 Mbp_chr15_43990076_F TCGTCGGCAGCGTCGAGTCCTTCTGACCCATGCC 60.1 0.02
mm3__chr15 43.99 Mbp_chr15_43990076_R GTCTCGTGGGCTCGGTGTCGTCGACAATGGCTCTG 60.3 0.02
mm4__chrX 152.37 Mbp_chrX_152366390_F TCGTCGGCAGCGTCGACATAGCCATGATGCATGCTT 59.4 0.02
mm4__chrX 152.37 Mbp_chrX_152366390_R GTCTCGTGGGCTCGGAGCATAGCTGAACACACACT 57.1 0.02
mm4__chr16 86.99 Mbp_chr16_86988124_F TCGTCGGCAGCGTCAAAGGAACAGGGGCACAGTG 60.4 0.02
mm4__chr16 86.99 Mbp_chr16_86988124_R GTCTCGTGGGCTCGGGAGCTTCTCCCTGGACTGC 59.7 0.02
mm4__chr11 69.10 Mbp_chr11_69097795_F TCGTCGGCAGCGTCCTCCCATGGGTCCTTAAGCC 59.8 0.02
mm4__chr11 69.10 Mbp_chr11_69097795_R GTCTCGTGGGCTCGGGTGAGCCCAAGAACACCTGA 59.8 0.02
mm4__chrX 72.02 Mbp_chrX_72017131_F TCGTCGGCAGCGTCAAACAACCCACCCCAGAAGG 60.1 0.02
mm4__chrX 72.02 Mbp_chrX_72017131_R GTCTCGTGGGCTCGGTCCAGAACATTCAGGCCCAA 59.2 0.02
mm4__chr3 32.89 Mbp_chr3_32892097_F Primer3: not found at this Tm N.d. 0.01
mm4__chr3 32.89 Mbp_chr3_32892097_R Primer3: not found at this Tm N.d. 0.01
mm4__chr19 3.67 Mbp_chr19_3670863_F TCGTCGGCAGCGTCGTGACTCAGGATTCCGGCTG 60.4 0.01
mm4__chr19 3.67 Mbp_chr19_3670863_R GTCTCGTGGGCTCGGTTTGTGGCCTGTCAGAGACC 59.8 0.01
mm4__chr19 45.15 Mbp_chr19_45152236_F TCGTCGGCAGCGTCGTCCAGGTTGACCGTGCAG 60.9 0.01
mm4__chr19 45.15 Mbp_chr19_45152236_R GTCTCGTGGGCTCGGATGACCAAGGCGTTGCAGAA 60.5 0.01
mm4__chr17 16.42 Mbp_chr17_16417147_F TCGTCGGCAGCGTCCAACATCAAAAGGGTGGCCC 59.6 0.01
mm4__chr17 16.42 Mbp_chr17_16417147_R GTCTCGTGGGCTCGGGTAGGTCCACCCACTGTGTG 59.9 0.01
mm4__chr6 7.22 Mbp_chr6_7216804_F TCGTCGGCAGCGTCCTGTGAGTCTGAGGCTTGGG 60.0 0.01
mm4__chr6 7.22 Mbp_chr6_7216804_R GTCTCGTGGGCTCGGGTCCTGACCAAGGCTTCTGT 59.6 0.01
mm4__chr2 29.71 Mbp_chr2_29714612_F TCGTCGGCAGCGTCGATGCTCACTCTCACTCCCC 59.5 0.01
mm4__chr2 29.71 Mbp_chr2_29714612_R GTCTCGTGGGCTCGGCTGCCTGAAGGGATCGTTCT 59.4 0.01
mm4__chr3 194.97 Mbp_chr3_194971080_F Primer3: not found at this Tm N.d. 0.01
mm4__chr3 194.97 Mbp_chr3_194971080_R Primer3: not found at this Tm N.d. 0.01
mm4__chr5 5.73 Mbp_chr5_5725800_F TCGTCGGCAGCGTCATCTGGGGCATGGAAATGGG 60.1 0.01
mm4__chr5 5.73 Mbp_chr5_5725800_R GTCTCGTGGGCTCGGTGCTGCTCTTGAAAAGGCAG 59.0 0.01
mm4__chr11 43.94 Mbp_chr11_43943118_F TCGTCGGCAGCGTCACCTTCGACGAGATCCAGGA 60.0 0.01
mm4__chr11 43.94 Mbp_chr11_43943118_R GTCTCGTGGGCTCGGGCTCTGCAGGAACGACTTCT 60.0 0.01
mm4__chr15 69.39 Mbp_chr15_69393667_F TCGTCGGCAGCGTCGCGGGAGAGAACCACCTTC 60.0 0.01
mm4__chr15 69.39 Mbp_chr15_69393667_R GTCTCGTGGGCTCGGTCAACCCTGATTTTCGGGCA 59.8 0.01
mm4__chr10 1.32 Mbp_chr10_1315664_F TCGTCGGCAGCGTCAGGGAGGGGCTTTGAGGG 60.6 0.00
mm4__chr10 1.32 Mbp_chr10_1315664_R GTCTCGTGGGCTCGGAGGCAATATTCTGGAGGCTGA 58.8 0.00
mm3__chr2 120.69 Mbp_chr2_120692192_F Primer3: not found at this Tm N.d. 0.00
mm3__chr2 120.69 Mbp_chr2_120692192_R Primer3: not found at this Tm N.d. 0.00
mm4__chr9 131.56 Mbp_chr9_131555007_F TCGTCGGCAGCGTCGCCCAGCTCTACCCAGCC 62.1 0.00
mm4__chr9 131.56 Mbp_chr9_131555007_R GTCTCGTGGGCTCGGAGACAGCACGGAGGGGAG 60.6 0.00
mm4__chr11 2.41 Mbp_chr11_2412147_F TCGTCGGCAGCGTCACCTGAGTGGCTTCATCTGG 59.3 0.00
mm4__chr11 2.41 Mbp_chr11_2412147_R GTCTCGTGGGCTCGGGGGGACAACTGGAACAAGTG 58.6 0.00
mm4__chr1 215.08 Mbp_chr1_215081842_F TCGTCGGCAGCGTCTCGCCTATTACGACGACAGC 59.9 0.00
mm4__chr1 215.08 Mbp_chr1_215081842_R GTCTCGTGGGCTCGGCGTAGGGACAGCCAAACTCG 60.7 0.00
mm4__chr8 144.48 Mbp_chr8_144475221_F TCGTCGGCAGCGTCAGCATCGGTTGGAGGAAAGG 60.0 0.00
mm4__chr8 144.48 Mbp_chr8_144475221_R GTCTCGTGGGCTCGGTGGCGGTTTCAGATCATCCG 60.4 0.00
mm4__chr15 72.36 Mbp_chr15_72361903_F Primer3: not found at this Tm N.d. 0.00
mm4__chr15 72.36 Mbp_chr15_72361903_R Primer3: not found at this Tm N.d. 0.00
mm2__chr19 13.48 Mbp_chr19_13481434_F TCGTCGGCAGCGTCAATGAGGGGTTGCTCTTCCG 60.0 0.00
mm2__chr19 13.48 Mbp_chr19_13481434_R GTCTCGTGGGCTCGGGGGCTGTCACTGTCTTAGCT 59.3 0.00
mm4__chr11 123.75 Mbp_chr11_123754202_F TCGTCGGCAGCGTCGATCAAGAACTCGGTGGTGC 58.9 0.00
mm4__chr11 123.75 Mbp_chr11_123754202_R GTCTCGTGGGCTCGGCCACCACAGTCATCCCCAAA 59.8 0.00
mm4__chr17 47.78 Mbp_chr17_47778527_F Primer3: not found at this Tm N.d. 0.00
mm4__chr17 47.78 Mbp_chr17_47778527_R Primer3: not found at this Tm N.d. 0.00
mm4__chr12 130.36 Mbp_chr12_130363048_F TCGTCGGCAGCGTCGAGGGCTTGGAATAGCTGCA 60.1 0.00
mm4__chr12 130.36 Mbp_chr12_130363048_R GTCTCGTGGGCTCGGTGGCACTTCGTAGTTCACCA 59.2 0.00

Off-target amplicon sequences

Primers underlined, off-targets in bold.

ontarget_mm0__chr7 5.53 Mbp_chr7_5529551 CTCCCCTACCTGGTGCCTGGGGCGCCCCACGATGGAGGGGAAGACGGCCCGGGGGGCATCGTCGCCCGCGAAGCCGGCCT
TGCACATGCCGGAGCCGTTGTCGACGACGAGCGCGGCGATATCATCATCCA
mm0__chr11 1.80 Mbp_chr11_1803989 CGCCACCCACATAGAAGTCCTTCTGACCCATGCCCACCGTCATGCCCTGGTGTCTGGGGCACCCCACGATGGAGGGGAAG
ACGGCCCAGGGGGCATCGTCGTCGGTGAAGCTGGCCTTGCACATGCCAGAGGTGTT
mm1__chr19 9.52 Mbp_chr19_9518232 AGTTAACAATGGCTCCGGCATGTGCAAGGTCAACTTCGTGGGCGACAATGCCCCCCGGGCCATCTTCCCCTCCATCGTGG
GGCATCTGAAGCACCAGGGCGTTATGGTGGGCATCGGTCAGAAGGACTCC
mm3__chr19 30.69 Mbp_chr19_30685760 TAAAGAAATGGCCCCGTGCAGAGGCAACCAGGGGGATGGGGGCACCGTCCCAGCCGCTGCCGCCGTCCTCCCCTCCATCA
TGGGCTGGGACGCTGTCAGCTCCACCACCTGCCCCACGGTCCTGCCACGTTGCTGAGATC
mm2__chr22 41.08 Mbp_chr22_41075133 GGAGTCCTTCTGACCCATGCCCACCATCATGACCTGGTGCCTGGTGCACCCCACGATGGAAGGGAAGATGGCCCAGGGGA
CATCGTCACCCGCGAAGCCGGCCTTGCACATGCCAGAGCTGTTGTCAACA
mm2__chr22 15.72 Mbp_chr22_15721569 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCAGGTGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATCGTGGGGTGCCCCAGGCACCAGAACATGAT
mm2__chr2 131.26 Mbp_chr2_131263638 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCGGGCGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATCGTGGGGCGCCCCAGGCAGCAGGGCATGATGGGGGGCATGCATCAGAAAGAG
mm2__chr2 130.66 Mbp_chr2_130656832 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCGGGCGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATCGTGGGGTGCCCCAGGCAGCAGGGCATGATGGGGGGCATGCATCAGAAAGAG
mm2__chr2 130.46 Mbp_chr2_130463837 CTCTTTCTGATGCATGCCCCCCATCATGCCCTGCTGCCTGGGGCGCCCCACGATGGAAGGGAAGACAGCCCGGGGGGCAT
CGTCGCCCGCAAAGCCGGCCTTGCACATGCCAGAGCCGTTGTCAATGACGAGCAC
mm2__chr2 130.08 Mbp_chr2_130075265 CTCTTTCTGATGCATGCCCCCCATCATGCCCTGCTGCCTGGGGCGCCCCACGATGGAAGGGAAGACAGCCCGGGGGGCAT
CGTCGCCCGCAAAGCCGGCCTTGCACATGCCAGAGCCGTTGTCAATGACGAGCAC
mm2__chr14 19.40 Mbp_chr14_19402802 ATCATGTTCTGGTGCCTGGGGCACCCCACGATGGAAGGGAAGACAGCCCGGGGGGCATCGTCACCTGCAAAGCCGGCCTT
GCACATGCCAGAGCCGTTGTCAATGACGAGCAC
mm2__chr14 19.00 Mbp_chr14_18998950 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCAGGTGACGATGCCCCCCGGGCTGTCTTCCCTTC
CATCGTGGGGTGCCCCAGGCACCAGAACATGAT
mm2__chr18 62.44 Mbp_chr18_62442091 CCTCGTCATCGACAATGGCTCTGGCATGTGCAGGGCTGGCTTCGCAGGCGACAGTGCTCTCCAGGCCGTCTTCCTCTCCA
TCATGGGGCACCCCAGGCACCAGGGTGTGATGGTGGGCATGGGTCAGAAGGACTC
mm3__chr10 129.19 Mbp_chr10_129192605 TGGTGACAGCACAGCAGTAGCACGGCTGGCCATTTCCTTCTTGTCCATCAGGCCGTCTCCACCTCCATCTGGGGGGCAGA
TTGGATCTTGCCA
mm1__chr6 88.28 Mbp_chr6_88276901 GAGTCCTTCTGACCCATGCCCACCATCACTCCCTGGTGCCTAGGGTGCCCCACAATGGAGGGGAAGACGGCCTGGGGAGC
CTTGCGCATGCTGGAGCAGTTGTCGACGACGACGAGCGCGGTGATAGCATCATCCA
mm4__chr10 99.97 Mbp_chr10_99969113 GTTGTCGAAACGGGCAGACTCCAAAAATCTAATTTCAAATAGTCTACTATTTGATGAGCAGCTTACCTCGATGGAGGGGA
AGATTATCCAACTCTTGGGATGTGAATTCACAAATGCACACAAACAGCCTCTCT
mm2__chr5 131.66 Mbp_chr5_131660010 ATGCCCATCATCACACCCTGGTGCCTCGGGTGCCCCATTATGGAGGGGAAGACGGCCCGGGGGCATCGTTGCCCGTGAAG
CAGACCTTCCACA
mm1__chr3 175.98 Mbp_chr3_175978473 GAGTCCTTCTGACCCATGCCCACCATCACACCTTGGTGCCTGGGGCGCCCCACGATGGATGGGAAGACGGCCCCGGAGGC
ATCGTCGCCTGCGAAGCTGGTCTTGCACATACAGGAGCCTTTGC
mm2__chr2 73.90 Mbp_chr2_73901397 AGGCTTCGCAGGAGATGATGCCCCCCGGGCTGTCTTCCCCTCCATTGTGGGCCGCCCTCGCCACCAGGTGCGTGCTCATC
TGGATA
mm4__chr2 73.04 Mbp_chr2_73044956 GGTGGGAAGAGGGCAGGATACCCCGATGGAGGGGAATGGGGACAGAGGGACAAGGAAGAAAAAGAGGCACAAAAAGGAAA
GCTGAGGAAGAGTCATCGGA
mm4__chr1 178.50 Mbp_chr1_178498817 CCCTACCCCTTCTCACCCTTCCCTGATGGAAGGGCAAACGGCCCCTCTGAATGGGCAAAAGAGAAAGAGGGGA
mm4__chr6 169.98 Mbp_chr6_169982313 GGAAGGACACGGGAAGGAAAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTTCTCCCCTC
CATCCCGGGCACACACAGGGTTTTCTGTGTGTCTATAACATGCTGTGTGTGATGGTGACG
mm4__chr12 56.61 Mbp_chr12_56611572 TCAGAGGAAAAGAGGCATTCCCTTCTTTCTAGAGTTGTGCATTAAACTTGTCAAGGTCAATAAATGTAGCAAACTAGAGC
ATTTACCCATGTTGGAGGGGAAGACGAACTTCTTCTGGGGTAGCAATACGTCTCC
mm3__chr17 57.12 Mbp_chr17_57121993 GAGCTCCTCCCAGTTCCAACCCAGCTGGCTTGTTCTTTCCGTCTCTGTCCTGGCCAAGCCTGAGCTGTGGCCATTGTCAG
GTGCCCATCTTCCCCTCCATCCAGGTTCTCGCCTGTGTGGTTAAC
mm4__chr3 38.55 Mbp_chr3_38554278 TTCTCCGTCCAGCTGACTTGTATACCCACCCACGATGGAGAGGATGACAACCACGAAGTCGAAGATATTCCAGCTGTTGG
TGAAGTAGTAGTGGCGCAGGG
mm4__chr12 126.88 Mbp_chr12_126884172 CAGGAGTCACAGAGTGGGGACCACCCAGCAAACGAAAGGCTGATTAGATGGGAGGCTGTCTTCCCCTCCAAAATGGGTCA
CATATCCCCCAAAGCAAGAGTTATTCTGG
mm3__chr5 1.07 Mbp_chr5_1068509 GCCCAGATTTCTCTAATTTCACACTAACATAGCCACGATGGAGGAGAATACGGCTCCCCAGGGCAGTGCAGCCCCAAAGG
CAGCCAAGGGAAGG
mm4__chr11_KI270721v1_random 84.93 Kbp_chr11_KI270721v1_random_84927 GGGTGGGTTCTGTTTGACCACAGGCCTTTGACCTGGGGTCGACAGTCTTCCCCTCCAACCTGGAGCTCAAGGGTGAGCTT
CAGCCTGGATGG
mm4__chr11 2.03 Mbp_chr11_2029738 GGGTGGGTTCTGTTTGACCACAGGCCTTTGACCTGGGGTCGACAGTCTTCCCCTCCAACCTGGAGCTCAAGGGTGAGCTT
CAGCCTGGATGG
mm4__chr11 134.39 Mbp_chr11_134389926 AAGGAGCACTGTGGTTTCCCGGGACGGCCGGCATCCCCTCCATTAAGGAGCACTGTGGTTTCCCAGGACGGCCGGCATCC
CCTGCCCACACCCCGCCATCAGAGGCCCACTCCATC
mm3__chr2 131.63 Mbp_chr2_131626221 GTGCTCGTCATTGACAACGGCTCTGGCATGTGCAAGGCCGGCTTTGCGGGCGACGATGCCCCCCAGGCTGTCTTCCCTTC
TATCGTGGGGCGCCCCAGGCACCAGGGCATGATGGAGGGCATGCATCAGAAGGAGT
mm4__chr13 31.16 Mbp_chr13_31162316 TGGTGTCCGATCCTTAACGCTAAAGGGAGGCTGGGCGGGCGGAGACAGACCCCATTTTTGCAGAGACCCCAGACACCGGG
ATGGTGGGGAGGCCGGCCAGCTGTCCGGAGAGCATGTTGGGAAT
mm4__chr10 101.83 Mbp_chr10_101829461 AGGGATCCGACTCAGTGCTCGCCCCGCGGCCCTCGATCCCTCGTTGGAGGGGAAGGCCCCCAGCCGCATCTTCGTTTTAG
AAAGGGAGGAGTGGGAAAAGCCAG
mm4__chr7 100.49 Mbp_chr7_100486783 AGGGTTGCTGACACCTCTTGGGGTGGAGAAGGGGGATGCCCAGGTCCGAGGCCCTTCCTCCACTCCATCGTGGCCTTCTC
TCCCCAGCTCCAGTAAGG
mm4__chr1 25.10 Mbp_chr1_25098832 AGTTCCCACCCAAAAGTGCAGCCCCTCTGCAGTGCCCTGGGCTCAGCTAAGACTGGCTCCTGGCTGTAAGAACATCGGCC
TCTTCCCCTCCATTGGGGTTGAGTGGGCAGAGCGGTTGGCCTCAGCACATGATCA
mm4__chr13 75.36 Mbp_chr13_75356250 TGGAGACTCCCGGCAGATAAAGCCAAAGTGATCCACATGCTTTATACCCTAGATGGAGGGGAAGAAGTGCAATAAAAATG
TATGGGAATATATATTTTTTACTCAACAATATGGAAAGCAACATCAGTTCTTTGC
mm4__chr17 3.92 Mbp_chr17_3915977 CCTCGTCCCCATCTCAACAGCGAGTTGGCAGGATTTTCTATTCTCGCACAGTGGCTTGCCAGGAAGGCCTTCCCCTGGAT
GGAGAGGAAGAGGGGCTCGCTGGTGTCACGCAAGGGATGTCAGA
mm4__chr14 96.93 Mbp_chr14_96931954 CGGAAATGCAGGCAAGATGGGGGCTTGTCCAAGAGGGAGGGAAGGACGGCCTTCTGGGAACGCCACATCTAGGCGGAGGC
TGAAACCACAGGGAGGAGCATACAAGTGGTTTGAAAGCAGCGGTCAG
mm4__chr16 53.53 Mbp_chr16_53531501 TCTCCTGGCCTGTTCTGAGAGGGAAGTGCCTGGGTTGTGTCCACACCTCGAGGGAGGGGAAGGCAGCTCAGAAAGCCCAT
GCAGCTCCTCTGCCGGACCACGACTACCCACCCTA
mm4__chr10 88.95 Mbp_chr10_88948818 CTCACCTGATGTCTGGGACGTCCCACAATGGATGGGAAAACAGCCCTGGGAGCATCGTCCCCAGCAAAGCCGGCCTTACA
GAGCCCAGAGCCATTGTCACACACCAAGGCAGT
mm3__chr1 219.93 Mbp_chr1_219928680 GCAGTATCTGAACAGCCCGTGCACCGCCTCCCGCGGCCCTTTTCCCCTCCCTCGCGGCCTGGGCCTGACTTGGCAGGTGG
CCACGAGCCGATGTCTCTCTTTGTGGGACAGGACTGTGCAGAGAG
mm4__chr13 110.82 Mbp_chr13_110820890 GCTCCTGCAGGGAATGACTTACGGGTTCAGGGTCCCTGATCTGGGAAGGCCCAGCCCCATGCCCCGTGTGCTCTCTGGGG
CCCACTTCCCATCCATAGTGGACTGGTTCAGGCTAGACCCT
mm4__chr3 73.74 Mbp_chr3_73737267 TCCACGTGTGTTGGCAAAACTGAACATAAGCTCTCACCCCAAAGGACTCCGCGATGGAGGGGCAGCAGGCAGGTGAGTGA
AGGATTCTGGCATTCATGGGTCCC
mm3__chr14 103.22 Mbp_chr14_103220206 AACCTGAAGCCCTGGAGATGGCCTGGCTGGAGGGGACGACGGCCCGCAGCGGGGACCCGACTCACTTCTTCGTCCCCACC
mm4__chr2 226.37 Mbp_chr2_226365075 CGTGGTTGCAGCTGTGTTATCCAAAGATAGAGCCCCAAATGGAGGGCAAGACAGCCTGTTTCTAAACTGCCAGTTACCCA
GTGG
mm4__chr1 156.49 Mbp_chr1_156490408 GGCAGGCTCACTACCCAAATCCCTGGTTCCCACCGTCTTTCCCTCCCTCGGGGACTCCCCTCCCCCAGTCCAGCAGCCTC
AGGGCTGGGCAGGGGCTATTTTTAGCCTGGGCACTGAGCTAATT
mm4__chr16 5.44 Mbp_chr16_5442563 TCGTAAAGTGGCATGGCAGTGGGGAGAGAAAAACCAAATCCCCGAGGGAAGGGAGGACAGCCATGTTTCCAGGAGGAGGA
TGCAGCTCTT
mm4__chr3 69.10 Mbp_chr3_69097737 GCAGAGAGGCCAAGTAGACCCAGGTAACACAGAACCAAGAGGGAGGGGAAGAGGGCAGAGAGAATAGCACATGTGCTGGG
TATTGGGGAAGGTTGGG
mm4__chr7 128.91 Mbp_chr7_128913637 TGGAGCGGAGGAATATGGGAAGCCAGGAGGGAAGAAAGTGGTGCTAGAGCCTGAGGAGCCAGCGCAGGCCAGAGCTGAAG
GAGTGAGGGGCCACGATGGAGAGGAAGAATGGCATTTTTACATGATCATGCCCGACTCCA
mm4__chr7 128.86 Mbp_chr7_128857521 GGCCTGGCTCTACACAGTACACGTTCTGTGGAGTCGGGCATGATCACGTAAAAATGCCATTCTTCCTCTCCATCGTGGCC
CCTCACTCCTTCAGCTCTGGC
mm4__chr19 23.28 Mbp_chr19_23283030 ACAGAGGAAGATCCAAGCAGTTTCAGGTACTTAGGAGGCCGAGATGGATGGGAAGACCACCTGGGCAAGACCAGGGAGAT
CAATGCCACA
mm3__chr5 168.05 Mbp_chr5_168047122 AGCAACTGTGTCCAGAGTGTAGAAAAGGATGGATGTGGTAGAGCAGCACTCTTTACAGTGATTCGAAAGGGCCATTTTCC
CCTCCATGGTGGCACCGTTTGGAAGATCTGGGCT
mm4__chr4 185.22 Mbp_chr4_185222498 CCCTATACCCCTCCCTCTCGGTAGGTTTACAGCGCCGTATACCCCTCCCTCGCGGTAGGTATACAGCGCCCTATATCCCC
TTCGTG
mm3__chr15 34.79 Mbp_chr15_34794696 GGGAAGTTTACCTGGTGCCGCGGGCGGCCCACGATGGACGGGAAGACAGCGCGGGGCGCGTCATCGCCCGCAAAGCCGGC
CTTCACCAGCCCAGAGCCGTTGTCGCACACCAGGGCGGTGGTCTCCTCGTCGTCACACAT
mm3__chr1 223.86 Mbp_chr1_223864745 TGACCCATGCTCACCATCACGCCCTGGTGCCTGGGGCGCCCCACCATGGAAGGGAAGATGGCCCAGGGGTCATCATCCCC
TGTGAAGCCAGCCTTGCACATGCCGGAGCTGTTGTCAATGACGAGCG
mm4__chr1 162.24 Mbp_chr1_162243857 TCATTCTTGCAGGGACCCACAGGACCATTTTTCAACCTCATTTAACCTGCAAAACAGCTGTTGTAAGAATTGTTGGAGGA
CCGTCTTCCCCTCAAAGGGGGTGTGAGTGGCAGGAACTGAT
mm4__chr20 22.55 Mbp_chr20_22553686 CAGCAGTCACCAAGAGGAGGGAGATTGAGGAGAGTCTAGAGGAAGAGCATGTGGCCCCAATGGATCGGAAGATGGCCACT
CCAGACTCCAGTCTATCTCTAACATTAAACTCCTGAGAGATTTGGGGCA
mm2__chr1 229.43 Mbp_chr1_229433003 GCAGCCTGACCTGGTGTCGGGGGCGGCCCACGATGGACGGGAACACGGCCCTAGGGGCGTCATCCCCGGCGAAGCCGGCT
TTCACCAGGCCGGAGCCATTGTCGCACACGAGGGCGGTGGTCTCGTCTTCGTC
mm4__chr1 1.20 Mbp_chr1_1203407 GCCAGGAGTTCCCAGAATGGGCCCTGGCTGCCCTCCGCTTTGCCCCCTGTGGAGGGGACCACGGCCAGGCATGAGCACGG
TGCCCCAAAGCCCAGCCCCGGGTGCCCCGTCCTCCCCCAGCACCCAGCATGCATCCACTC
mm4__chr12 123.41 Mbp_chr12_123407474 ACCAGAGCTGAGCACAAGTGTGACTCTCTTCAGGTTGAAAAGCCTCTTTATCCATTTAATCCTCTCTGGCCCTCCTTCCC
CTCCAGCGTGGATGCAACTAGAGAGACAAATCGCCTAGGAAGACTGATCA
mm4__chr7 157.85 Mbp_chr7_157849861 GGGGAGGCCAAACGTGTTATTTTAGCTAAACTTAGGGTTCGATCACCATGGAGGAGGGGAAGACGGCACAGACCCTTCAC
CGCTGGCCCTGATGGCAGCTGGGGCCCGTGTGTGCCGTGTCCTGGGGACGACATGAGAT
mm4__chr8 84.95 Mbp_chr8_84948671 CTCTGGTATGTGCAAGGCCAGAATCCTTGTCAAAGATGCCCCCAGGCCTTCTTCCTTTCCATAGTGGGATGCCCATGGGA
CCAGAGTTTGATGATGGGCATAGGGCAGAAGGACTG
mm3__chr16 17.65 Mbp_chr16_17652339 GGCAAGCTATCCCCACCAATAATCATTCACTTTCAGGGTAGCCTCTGAACAGGTATTGACTTTAGAGACTAGCAATTCAT
CCCGGGCCCTCTATCCCTCCATCGAGATTCTTCGGCAGTCTTTGAAGCAGA
mm4__chr5 80.30 Mbp_chr5_80302741 CTCTTGCTCTGGGCCTCATCCACATAGGAGTCCTTCTGACCCATGCCCACCATCATGCCCTGGTGCCATGATGAAGGGGA
AGGCAGCCCGGGGGACACCATCGCTCGCAAAGCTAGCCTTGCATATGCCA
mm4__chr1 8.94 Mbp_chr1_8943687 TCTCTCTGACTCTCCAGGGCCCCTCTTTGGGCAGTCTTCCCCTCCCCCTTGGCCCAGGCTTTCTCTGAGCTC
mm4__chr7 154.91 Mbp_chr7_154907743 TGTCCTGCAGAGTCAGGGATGAGACGTCTTCCCCTCCTTCCTGGCCTCAGGCACACTGGTGTCTCTCCAGTCCCACCACA
GTCCTGGCTCCAGGTCTTGCCAACTCCTCCCCAGCAGCCTCAAGGGGCTGCTTCTGATG
mm4__chr5 98.34 Mbp_chr5_98338825 GCTCCTCATCAACAAGGGCTCTGGCATGTGCAAGGCCGGCTTCACAGGTGACAATGCCCCCGGGCCATCTTCCCCTCTGT
CATGGGTGCCAGGGAGTGATGGTGGGCATGGGTCAAAA
mm4__chr4 6.52 Mbp_chr4_6521619 GAGTCGTCTCAGGAGCCCTAACCCACGTCCCACCCCTCCAGGGCCCTCCTCTCCTCCCTCGAGGTGATGTGAGTTCATAC
GTAGGAGGCACTTACACAGGAGCTGGT
mm4__chr22 25.97 Mbp_chr22_25965315 TCCCTCTGTACTGGTCAATTTGTGAAGGCCTTGTTCCCCTCCATATTGGTCAGTTTCCCTCGAAGGAAAAAGCCCATTNN
NNNNNNNNNNNNNNNNNNNNNNNNNATTTGGATCTGAGAGGACTTTACCAGACCACCAGG
mm4__chr19 45.50 Mbp_chr19_45497187 ACTAAAGGGGCGGAACCAAGAGGGTGGGCTACGGAGCCAGGAAGGAGGGGAAAGCGGCCTGAAGGGCGGGGCCTAGATCG
CAGAGGGCGCAGCCTTTAGGGGAAGAGG
mm4__chr13 20.90 Mbp_chr13_20902474 CCACTATATTCCCACGCCCGACTGGGGTGCTGGGCAGCCAGGGGAAGGGGACAGCTCCTGGAAGGAGGGGACGACGGCAG
GAGGAAAGTAGGCTGAAGAATCCTGCGCCACGCCACCGCCACCTCCTCCTCCACTTCCAG
mm4__chr1 5.52 Mbp_chr1_5517048 TGTAAAGGGCTCAGCACAGCGGGCAGGGGCGGGGGAGGCTGAGAAGGGGAGGGCTGTCTTCTCCTCCCTCAAGGAGGTTG
CCCTTTGGTAATAATCAAACGATGTTCCTAGGGGAGGAAAGTTCACCAGTAGCTTGGGC
mm4__chr19 49.37 Mbp_chr19_49374720 CCTTGTTCTTCCTCCCCAGGTACCCAGGATGGAGGAGAAGGAGGCCCTGGTACCCATCCAGAAGGCCACGGACAGCTTCC
ACACAGAACTCCATCCCC
mm4__chr19 54.14 Mbp_chr19_54141817 TGACTACTCCAGGGTTCCCTGCCCTGCACACGTAGAGTGGGAGCGGCCCGTGGATCCCAGGGAACTGTGCTTTTCATTGT
AGGCCCCCTCCCTGGAGGGGAAGAGGGCAATCTCCGCTGGTATCTCAGAAGTCT
mm4__chr1 17.86 Mbp_chr1_17856601 GGTGGACTCTGTGTGCTCTCTTGTGGACCTCCCGACACTCTGCCATGGCCTGGTCCAGCTGTGGGCTCTGCACCGCCATG
GAGGGAGAGAAGGCCATGCTGCCCCTCCCTCCCCACCCACATAAGCGTGCACACTCCA
mm4__chr2 124.03 Mbp_chr2_124034376 CAGTGTAGGGCAAGGACAGCTACATTTCCATTTTCAAACAAAGTCTGGCCCACTTCCCCTTCATCTGGGTAATCGGATGG
GTGAGTCACTG
mm3__chr15 43.99 Mbp_chr15_43990076 GAGTCCTTCTGACCCATGCCCACCGTCACGCCCTGGTGTCTGGGGCGCCCCACAATGAAGGGGAAGATGGCCCGGGGTGG
GCATCGTCACCTGCAAAGCTGGCCTTGCACATGCCAGAGCCATTGTCGACGACA
mm4__chrX 152.37 Mbp_chrX_152366390 GACATAGCCATGATGCATGCTTAGAAAACATGAGTCCATGAGTAACAATCCTGGATGTAGGAGAAGATGGCCATGCTGTG
TAAACAAAGAGATCCATAGTGTGTGTTCAGCTATGCT
mm4__chr16 86.99 Mbp_chr16_86988124 AAAGGAACAGGGGCACAGTGGCTTGGGGCCGTCTTCTCATCCACCCGGGCCTGCACCACAGTTGCCCTGTGCACCTTTGT
CCCCCGCACTGGCCACAGCTCCGCAGCAGCCCTGGCTCTGGCAGTCCAGGGAGAAGCTC
mm4__chr11 69.10 Mbp_chr11_69097795 CTCCCATGGGTCCTTAAGCCAGTCTTCAAACAGTTCATGCCAGGGCCCTCTGCCCCTCCTGCGTGGTCCCCACCTGGATC
CCAGCAGCCTCAGGTGTTCTTGGGCTCAC
mm4__chrX 72.02 Mbp_chrX_72017131 AAACAACCCACCCCAGAAGGGTGCACTCATTCATCATGCCCCTCTATATAGGGGAAGACGGGCTGGGTAGCAGGGCCTAT
TGGGCCTGAATGTTCTGGA
mm4__chr19 3.67 Mbp_chr19_3670863 GTGACTCAGGATTCCGGCTGCCACGGTGAAGGGAAAGACGGGCTGCTTCTCTGTCCTTCCAGAGGACAGGGCCAGTCGCC
CCCAGGTCTCTGACAGGCCACAAA
mm4__chr19 45.15 Mbp_chr19_45152236 GTCCAGGTTGACCGTGCAGCGCAGCAGGCTCTGCGCCTCGGCCACGGTGAAGGGGAAGTCGGCGCCCAGGAAGCGCTCGA
AGAGCTCGGGGTCGCCGTCCAGGTCGAGCACGTTCTGCAACGCCTTGGTCAT
mm4__chr17 16.42 Mbp_chr17_16417147 CAACATCAAAAGGGTGGCCCTATTGGTTCCCTGTTCCTCACCCCACAGGCCTCCCTCCCTCTCCTCACCCCTGCTGCTCA
TCCCTCCTGGCCCACTTCCCCTGCATTGGGGCTGGGCTCCCACACAGTGGGTGGACCTAC
mm4__chr6 7.22 Mbp_chr6_7216804 CTGTGAGTCTGAGGCTTGGGCAGGCAGAAACAGATTTTAAACACTTCCGGGGGCTATGAACAGAGGTCCCTCAAGGAGGG
GAAGACTGCCCCCACCCCTCACCTGACAGGTACAGAAGCCTTGGTCAGGAC
mm4__chr2 29.71 Mbp_chr2_29714612 GATGCTCACTCTCACTCCCCCACCCTGACGACCTCCCACCAGGATGCAGGTGAAGACAGCCAACCAAGCGTGGACTTCCA
TGATGGACTTGCAGAGACTTGGTGACTTCTCACTGTCTGAAGAACGATCCCTTCAGGCAG
mm4__chr5 5.73 Mbp_chr5_5725800 ATCTGGGGCATGGAAATGGGCTGCAGCTCCAGGACCTTCTTGAATCCCACCATGTAGGGGAACACTGCCCTGGAGGTAGG
GATCTTGAAATTCTGCCTTTTCAAGAGCAGCA
mm4__chr11 43.94 Mbp_chr11_43943118 ACCTTCGACGAGATCCAGGAGGTGGAGGAGGAGGGGGTGTCCCCCATGGAGGAGGAGAAGGCCAAGAAGTCGTTCCTGCA
GAGC
mm4__chr15 69.39 Mbp_chr15_69393667 GCGGGAGAGAACCACCTTCCCCTCCAGGGAGGGGAAGACCTCCTGGGGGAGACCAGGAACCTCAGTATTTGCTTGACAGT
TATCTGATGCTTGCCCGAAAATCAGGGTTGA
mm4__chr10 1.32 Mbp_chr10_1315664 AGGGAGGGGCTTTGAGGGGCCCCTATGCAGGTGAAGACGCCCCTTCCCTATGCCCCAGCATCTCAAATATTTACCACGTT
AAATATCAGCCTCCAGAATATTGCCT
mm4__chr9 131.56 Mbp_chr9_131555007 GCCCAGCTCTACCCAGCCGCGCCCACGCCGCCCGCGCTCTTCTCGCCGCCCGCCGGGGCCGCCTTCCCCTTCCCCGTGGT
GAGTGGCCGCCGCCCTGGGCGCGCTCCCCTCCGTGCTGTCT
mm4__chr11 2.41 Mbp_chr11_2412147 ACCTGAGTGGCTTCATCTGGAAGCCTGCCCACAAGCCGCCCTGAGGCCACACGGCCTCTGGGCCCCACAGACCTGCAGGT
GACACCCACGATGAACAGGAAGATGGCCACCATGTCACACTTGTTCCAGTTGTCCCC
mm4__chr1 215.08 Mbp_chr1_215081842 TCGCCTATTACGACGACAGCAACGTCTGATCTCCTGGCTTTCTTCCCCTCCTTGGTGGGTTCCGTTCCGTCCCCCTGTCG
CTGCGAGTTTGGCTGTCCCTACG
mm4__chr8 144.48 Mbp_chr8_144475221 AGCATCGGTTGGAGGAAAGGTTGTGGCGAATGGAGTCTTTCCAGCCCTCGTAGTCTTCCCTGAAGAAGGGGAACACGGCC
TGGACCTGACGGATGATCTGAAACCGCCA
mm2__chr19 13.48 Mbp_chr19_13481434 AATGAGGGGTTGCTCTTCCGTTCTCCATGGAGGGGAAGAAGGCCGGTTAAGCTTGAATGGTGGAAGCTAAGACAGTGACA
GCCC
mm4__chr11 123.75 Mbp_chr11_123754202 GATCAAGAACTCGGTGGTGCCCACGAAGAAGTGGAAGAAGGCCTGCAGCAGGCAGCAGGACATGCAGATTACTGTTCTTG
CCACTACAAAGGTTCCTAGCAGTTTGGGGATGACTGTGGTGG
mm4__chr12 130.36 Mbp_chr12_130363048 GAGGGCTTGGAATAGCTGCAATGAGTACATGCCCAGCCGGATCATCGTGTACCGCGATGGCGTAGGAGACGGCCAGCTGA
AAACACTGGTGAACTACGAAGTGCCA

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

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CRISPR/Cas9 Guide Designer for chordate vertebrate ecdysozoans lophotrochozoans protostomes spongi corals plants butterflies metazoans genomes fruitflies insects nematodes mammals.