Array 1 163896-161998 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIJS01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain SI3337/12 scaffold_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 163895 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 163834 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 163773 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 163712 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 163650 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 163589 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 163528 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 163467 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 163406 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 163345 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 163284 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 163223 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 163162 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 163101 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 163040 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 162979 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 162918 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 162857 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 162796 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 162735 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 162677 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 162616 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 162555 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 162494 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 162433 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 162372 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 162311 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 162250 29 100.0 11 ............................. CGGCCAGCCAT Deletion [162211] 162210 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 162149 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 162088 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162027 29 93.1 0 A...........T................ | A [162000] ========== ====== ====== ====== ============================= ================================= ================== 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 181794-180178 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIJS01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain SI3337/12 scaffold_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181793 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 181731 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 181670 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 181609 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 181548 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 181487 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 181426 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 181365 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 181304 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 181243 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 181182 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 181121 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 181060 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 180999 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 180938 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 180877 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 180816 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 180755 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 180693 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 180632 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 180571 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 180510 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 180449 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 180388 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 180327 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 180266 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 180205 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], //