Array 1 218446-216548 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJX01000001.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N48577 N48577_contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218445 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218384 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218323 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218262 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218200 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218139 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218078 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 218017 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 217956 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 217895 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 217834 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 217773 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217712 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217651 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217590 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217529 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217468 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217407 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217346 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217285 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217227 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217166 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217105 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217044 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 216983 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 216922 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 216861 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 216800 29 100.0 11 ............................. CGGCCAGCCAT Deletion [216761] 216760 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 216699 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216638 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216577 29 93.1 0 A...........T................ | A [216550] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [11-0] 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 236344-234728 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJX01000001.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N48577 N48577_contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236343 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236281 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236220 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 236159 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236098 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 236037 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 235976 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 235915 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 235854 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 235793 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235732 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235671 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235610 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235549 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235488 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235427 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235366 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235305 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235243 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 235182 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 235121 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 235060 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 234999 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 234938 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 234877 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 234816 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234755 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [6-0] 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], //