Array 1 172395-171493 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIID01000005.1 Salmonella enterica subsp. enterica serovar Kentucky strain 3344 2017-SEQ-0267_5_length_294222_cov_60.137, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 172394 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 172333 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 172272 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 172211 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 172150 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 172089 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 172028 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 171967 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 171888 29 100.0 32 ............................. GCGCGCAACCCGGCATTTCACAGAAAATTTTT 171827 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 171766 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 171705 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 171644 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 171583 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 171522 29 96.6 0 ............T................ | A [171495] ========== ====== ====== ====== ============================= ================================================== ================== 15 29 99.5 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 189742-188555 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIID01000005.1 Salmonella enterica subsp. enterica serovar Kentucky strain 3344 2017-SEQ-0267_5_length_294222_cov_60.137, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 189741 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 189680 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 189619 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 189558 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 189497 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 189436 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 189375 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 189314 29 100.0 31 ............................. CGTACAGCCGTATGCCTCAGACTCCCCACGA 189253 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 189192 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 189131 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 189070 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 189009 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 188948 29 93.1 31 A...........T................ CGGGTTAGCGCCTGCGGATAATGCCCAGCAC 188887 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 188826 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 188765 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 188704 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 188643 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 188582 28 96.6 0 .........................-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%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], //