Array 1 2901115-2899156 **** Predicted by CRISPRDetect 2.4 *** >NZ_LN649235.1 Salmonella enterica subsp. enterica serovar Infantis strain 1326/28 chromosome 1 Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2901114 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 2901053 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 2900992 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 2900931 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 2900869 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 2900808 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 2900747 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 2900686 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 2900625 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 2900564 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 2900503 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 2900442 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 2900381 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 2900320 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 2900259 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 2900198 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 2900137 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 2900076 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 2900015 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 2899954 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 2899896 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 2899835 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 2899774 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 2899713 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 2899652 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 2899591 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 2899530 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 2899469 29 100.0 11 ............................. CGGCCAGCCAT Deletion [2899430] 2899429 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 2899368 29 100.0 32 ............................. GGCGATGCGGGCGCATTGTACGCGATGCAGAC 2899307 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 2899246 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2899185 29 93.1 0 A...........T................ | A [2899158] ========== ====== ====== ====== ============================= ================================= ================== 33 29 97.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.04, 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 2919013-2917397 **** Predicted by CRISPRDetect 2.4 *** >NZ_LN649235.1 Salmonella enterica subsp. enterica serovar Infantis strain 1326/28 chromosome 1 Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2919012 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 2918950 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 2918889 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 2918828 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 2918767 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 2918706 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 2918645 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 2918584 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 2918523 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 2918462 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 2918401 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 2918340 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 2918279 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 2918218 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 2918157 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 2918096 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 2918035 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 2917974 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 2917912 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 2917851 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 2917790 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 2917729 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 2917668 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 2917607 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 2917546 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 2917485 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 2917424 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], //