Array 1 163109-161090 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIJR01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain SI786/13 scaffold_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 163108 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 163047 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 162986 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 162925 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 162863 29 100.0 45 ............................. GCCCAATTGCCGGCGACGGTGATGTAGGTTTCTTCCTGAAGGCGA 162789 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 162728 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162667 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162606 29 82.8 18 ......................G.TGTA. GTTTCTTCCTGAAGGCGA Deletion [162560] 162559 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 162498 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162437 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162376 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162315 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 162254 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 162193 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 162132 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 162071 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 162010 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161949 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 161888 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 161827 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 161769 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 161708 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 161647 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 161586 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 161525 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 161464 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 161403 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161342 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 161241 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 161180 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161119 29 93.1 0 A...........T................ | A [161092] ========== ====== ====== ====== ============================= ======================================================================== ================== 33 29 98.1 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.10, 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: F [3-5] 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 [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 180946-179391 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIJR01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain SI786/13 scaffold_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180945 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 180883 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 180822 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 180761 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 180700 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 180639 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 180578 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 180517 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 180456 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 180395 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 180334 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 180273 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 180212 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 180151 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 180090 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 180029 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 179968 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 179907 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 179845 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 179784 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 179723 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 179662 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 179601 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 179540 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 179479 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 179418 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 26 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], //