Array 1 88361-89976 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHV01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N46813 N46813_contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88361 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 88423 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 88484 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 88545 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 88606 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 88667 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 88728 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 88789 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 88850 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 88911 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 88972 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 89033 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 89094 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 89155 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 89216 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 89277 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 89338 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 89399 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 89461 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 89522 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 89583 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 89644 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 89705 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 89766 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 89827 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 89888 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 89949 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 106259-108156 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHV01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N46813 N46813_contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 106259 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 106320 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 106381 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 106442 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 106504 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 106565 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 106626 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 106687 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 106748 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 106809 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 106870 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 106931 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 106992 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 107053 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 107114 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 107175 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 107236 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 107297 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 107358 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 107419 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 107477 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 107538 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 107599 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 107660 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 107721 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 107782 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 107843 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 107904 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 108005 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 108066 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 108127 29 93.1 0 A...........T................ | A [108153] ========== ====== ====== ====== ============================= ======================================================================== ================== 31 29 98.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.07, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //