Array 1 1-942 **** Predicted by CRISPRDetect 2.4 *** >NZ_APAP01000112.1 Salmonella enterica subsp. enterica serovar Braenderup str. CFSAN000756 CFSAN000756_7000005, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 26 86.2 32 ---..........T............... TCATCGAGTACGGAAAATCCGTTTTTATTGTA 59 29 100.0 32 ............................. CTACGAAGGCGTCTTTATGGCGCACAGTACCA 120 29 100.0 32 ............................. CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 181 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 242 29 100.0 32 ............................. TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 303 29 100.0 32 ............................. CCTGGCAAATTATTTCCTGGATACTCGATATC 364 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 425 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 486 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 547 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 608 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 669 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 730 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 791 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 852 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 913 29 93.1 0 A...........T................ | A [940] ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 152-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_APAP01000050.1 Salmonella enterica subsp. enterica serovar Braenderup str. CFSAN000756 CFSAN000756_6000007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 151 29 100.0 32 ............................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 90 29 100.0 32 ............................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGTGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : G # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTGTTCCCCGTGCCAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGTGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-8.50,-11.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 947-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_APAP01000092.1 Salmonella enterica subsp. enterica serovar Braenderup str. CFSAN000756 CFSAN000756_19000007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 946 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 885 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 824 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 763 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 701 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 640 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 579 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 517 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 456 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 395 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 334 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 273 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 212 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 151 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 90 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 16 29 100.0 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : G # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17782-17205 **** Predicted by CRISPRDetect 2.4 *** >NZ_APAP01000092.1 Salmonella enterica subsp. enterica serovar Braenderup str. CFSAN000756 CFSAN000756_19000007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17781 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 17720 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 17659 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 17598 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 17537 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 17476 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 17415 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 17354 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 17293 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 17232 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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: F [61.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //