Array 1 3477769-3475871 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060512.1 Salmonella enterica strain SLR1_7966 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3477768 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 3477707 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 3477646 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 3477585 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 3477523 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 3477462 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 3477401 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 3477340 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 3477279 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 3477218 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 3477157 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 3477096 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 3477035 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 3476974 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 3476913 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 3476852 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 3476791 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 3476730 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 3476669 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 3476608 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 3476550 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 3476489 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 3476428 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 3476367 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 3476306 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 3476245 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 3476184 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 3476123 29 100.0 11 ............................. CGGCCAGCCAT Deletion [3476084] 3476083 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 3476022 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 3475961 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3475900 29 93.1 0 A...........T................ | A [3475873] ========== ====== ====== ====== ============================= ================================= ================== 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 3495423-3494051 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060512.1 Salmonella enterica strain SLR1_7966 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3495422 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 3495360 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 3495299 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 3495238 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 3495177 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 3495116 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 3495055 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 3494994 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 3494933 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 3494872 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 3494811 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 3494750 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 3494689 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 3494628 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 3494566 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 3494505 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 3494444 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 3494383 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 3494322 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 3494261 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 3494200 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 3494139 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 3494078 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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], //