Array 1 235885-234940 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXMQ01000001.1 Salmonella enterica subsp. enterica serovar Johannesburg strain BCW_1603 NODE_1_length_670681_cov_0.388076, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 235884 29 100.0 32 ............................. GTGGTGATGGTGCCCGGTCCGGCCGGGTCGCA 235823 29 100.0 32 ............................. TAAACGAAATACGACCAGCAAACGATGCTAAA 235762 29 100.0 32 ............................. TTGAATGCCTCCAGCGCCAGGCCAGTTGTGGT 235701 29 100.0 32 ............................. TATTCCTCGCCGTTACGCGGATGCATGTCGTT 235640 29 100.0 32 ............................. CGGCCCAGGCAGACAGATGGCAGGCGTTCGGA 235579 29 100.0 32 ............................. AGAACAATATTAGACAGCGCGCTATATAAAGA 235518 29 100.0 32 ............................. TTCTGGCTAATGCTCCGATGGCTCCAGTAAAG 235457 29 100.0 32 ............................. GCAACCGTGTATCGGCTATTCAACGCACTGAA 235396 29 100.0 32 ............................. CGAATCCCCACGGCTTGCAGGTACTGATCAAC 235335 29 100.0 32 ............................. GCAGTTACAGCGCTGGTGCTGGGGCAGAACAT 235274 29 96.6 32 ............................A GGGCGCGCGCGTTGTTGGTGATTCTGCATATT 235213 29 100.0 32 ............................. GTGGGATAACATGAATATTCAGTTTCAAATCG 235152 29 100.0 32 ............................. CCGTTTAATCTCTTCATCTGTGGCAATTTTTA 235091 29 100.0 32 ............................. CATGGCATCTGCCGCTTCTCCGTAACGCTTAA 235030 29 100.0 32 ............................. GCTGGAGTGTTACGCCCTGACTCATAATTTGA 234969 29 96.6 0 ............T................ | A [234942] ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAGTGGTTGCTCTAACAGACCGGAGGAAGTGAGGTGGCTTAACCATGGATAACCCGCGTTATCGCTACCACCAGCGCTCATAAATCCCGCGCCATCGCTAAACGCATTAAGTAATTTTTCCCGTAAAGCGGCGGGAAGAGTGGCGCTCAGAATAATAGCGCTACCGCCCTGGGCGGCATGGAAGCGCAATAAACCTTCCAGCAATTTAACCATATAACCATCATAGGCGTGTACTTCATCCAGCAGCAGGATTTTGTCGCGCATCCCTAGCAATCGGAGCGATTGATGGCGAAAAGGCATCACCGCCATTAAGAGTTGATCCAGCGTACCTACGCCGACTTCCGCCAGCAGCGCTTTTTTGCGTGAATCTGCAAACCAGGTATGGCACTCAGTAGTCGCGTTGCCATCATCACGGGCATAATCTTCAGCTATATTTTCTGTTGGCTGCCAGATGGATTGTCGGAAAGAGTCCGACATTTCTCGCCCACCGTGTGCCAGGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGAATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGGTTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-43.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 245226-245015 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXMQ01000001.1 Salmonella enterica subsp. enterica serovar Johannesburg strain BCW_1603 NODE_1_length_670681_cov_0.388076, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 245225 29 100.0 32 ............................. ACGGAAAAGCTGCTGCTGCTGTTAGCCAGGCC 245164 29 100.0 32 ............................. GGTTGCCTTTACCGTCCAACAATATATTTATA 245103 29 100.0 32 ............................. TACCAACAATTCCGCGTTACGCCAACGGTAAC 245042 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 4 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATCGCCTGATGCATTACTAATCCTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.73 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //