Array 1 108415-108141 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAST01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 22.H.04, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 108414 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 108353 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108292 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 108231 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 108170 29 93.1 0 A...........T................ | A [108143] ========== ====== ====== ====== ============================= ================================ ================== 5 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AAAAATAGTCCTGAACGATAGCCCGCGCGGTCGTGTTCCCCGCGCCAGCGGGGATAAACCGCAGGAGTGGCTGGAGACTGTCGTCAAGCCTGAGTGTTCCCCGCGCCAGCGGGGATAAACCGTTTTATAACGACACTAAAACCCGCCAGTTATAGTGTTCCCCGCGCCAGCGGGGATAAACCGATTTTAACGGCAAGGTCGACAGGAGATACCACGTGTTCCCCGCGCCAGCGGGGATAAACCGGATCATCACCCAGGCATTTTCTGGAATATGAAGTGTTCCCCGCGCCAGCGGGGATAAACCGAATCCCGATGATCATGAATATTTCTGGCGCCAGTGTTCCCCGCGCCAGCGGGGATAAACCGGCTAAAACGGCGCTTGAGAACAGTATCAATATGTGTTCCCCGCGCCAGCGGGGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%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], // Array 2 109498-108549 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAST01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 22.H.04, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 109497 29 100.0 32 ............................. GAGGTGCTGGCCGCGCTGGCCGCAGAAAAATT 109436 29 100.0 32 ............................. GTAGCCTTCAGACACTTTAGCCAGGTTCCCTA 109375 29 100.0 32 ............................. AGCGAAAATAAAGACGACGAACTCGTCACAAC 109314 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 109253 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 109192 29 100.0 37 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAGCCTGA 109126 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 109065 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 109004 29 100.0 32 ............................. CTGGGAAGATTGGGCGCTTTCAATATCTTCCA 108943 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 108882 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 108821 29 100.0 32 ............................. TTTTATAACGACACTAAAACCCGCCAGTTATA 108760 29 100.0 32 ............................. ATTTTAACGGCAAGGTCGACAGGAGATACCAC 108699 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 108638 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 108577 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 16 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTTGAACAAATATATAGTTTTAGT # Right flank : GCTAAAACGGCGCTTGAGAACAGTATCAATATGTGTTCCCCGCGCCAGCGGGGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGTTCCCCGCGCCAGCGGGGATAAACCGTGACGAGGTGCGAGCGATGGTATCAAGGCCTAGTGTTTCCCGCGCCAGCGGGGATAAACCGGGTTAACCAGGGGTTTTTCCCCACTATTTCGCGTGTTCCCCGCGCCAGCGGGGATAAACCGGCAGAAACAGAAACCGGATATGAGCCATCCATGTGTTCCCCGCGCCAGCGGGGATAAACCGAGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAAATGTTCCCCGCGTCAGCGGGGATAAACACGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCA # 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 : 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [41.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 126378-125784 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAST01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 22.H.04, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================= ================== 126377 29 100.0 49 ............................. AAATTGTCTGATAGATTGGCAAAAGCGATGGAGATGCAGATAAAAACGA 126299 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 126238 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 126177 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 126116 29 100.0 32 ............................. CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 126055 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 125994 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 125933 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 125872 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 125811 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================================= ================== 10 29 97.9 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGACTGGCTGGTCAGCACGCCGTTAGTCGCCGTGTTCCCCGCGCCAGCGGGGATAAACCGAAATTGTCTGATAGATTGGCAAAAGCGATGGAGTGTTCCCCGCGCCAGCAAGGATAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGTCAGCACGCAGTTAGTCGCC # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.00, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [38.3-13.3]%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], //