Array 1 16699-15205 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEJ010000003.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-16 NODE_3_length_306741_cov_9.067241, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16698 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 16636 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 16575 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 16514 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 16453 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 16392 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 16331 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 16270 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 16209 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 16148 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 16087 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 16026 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 15965 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 15904 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 15843 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 15782 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 15720 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 15659 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 15598 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 15537 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 15476 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 15415 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 15354 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 15293 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 15232 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 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], // Array 1 218803-216905 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEJ010000005.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-16 NODE_5_length_219922_cov_9.117596, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218802 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218741 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218680 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218619 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218557 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218496 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218435 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 218374 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 218313 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 218252 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 218191 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 218130 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 218069 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 218008 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217947 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217886 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217825 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217764 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217703 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217642 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217584 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217523 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217462 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217401 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 217340 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 217279 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 217218 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 217157 29 100.0 11 ............................. CGGCCAGCCAT Deletion [217118] 217117 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 217056 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216995 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216934 29 93.1 0 A...........T................ | A [216907] ========== ====== ====== ====== ============================= ================================= ================== 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], //