Array 1 15036-15169 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATN01000046.1 Salmonella enterica subsp. enterica serovar Agona str. 04.O.05, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================== ================================== ================== 15036 24 100.0 34 ........................ CAAAGAGGCAGCTTAAAGGATGAAGTTTATAAAA 15094 24 100.0 28 ........................ AATCCCCGGGAGCATAGATAACGATGTG 15146 24 100.0 0 ........................ | ========== ====== ====== ====== ======================== ================================== ================== 3 24 100.0 32 ACCGGGGTTTCTGAGCGCAGCCAA # Left flank : TGACGGGGCTGGTCGCATGGGGAATGCTGGCCGCGCTGGATGTTCGCTTCGCCTTTGTCTGGGGTCTACTGGCCTTCGCGCTGAACTATATCCCTAATATTGGATCTGTGCTCGCTGCCCTGCCGCCCATTATTCAGGTGCTGGTATTTAACGGGTTTTATGATGCGCTGCTGGTGCTGGCAGGCTATCTGCTGATTAATCTGGTCTTCGGCAATATCCTTGAGCCACGTATCATGGGACGTGGTTTAGGCCTTTCAACCTTAGTGGTATTTTTGTCGTTAATTTTCTGGGGCTGGCTATTAGGTCCGGTGGGCATGTTGCTCTCCGTTCCGTTAACCATCATTGTCAAAATCGCCCTCGAACAGACCACCGGCGGGCAGAGTATCGCCGTTCTGCTTAGCGATTTAAACAAAAGATAAAATGCAATACATACACAAAATCATTCAAGATGCATCGCGTCGGCAAGGGAAGAAATCCCCGGGAGCATAGATAACGATGTG # Right flank : ACAAAGAGGCAGCTTAAAGGATGAAGTTTATAAAAACGGCCTCCGAAGAGGCCGCCGCACGTTTAAAAGATTAAAGCGCTTTCAGAATTGCATCCACGCTGGCTTTGGCATCGCCAAACAGCATTTGCGTATTCTCTTTAAAGAACAGTGGGTTCTGCACACCAGCATAACCGGTATTCATTGAACGCTTAAAGACCACGACATTCTGTGCTTTCCACACTTCGAGAACCGGCATACCGGCGATCGGGCTGCGGGGATCGTCTTGCGCCGCCGGGTTCACCGTATCGTTCGCGCCAATCACCAGCACGGTATCGGTATCGGCGAAATCATCGTTGATCTCGTCCATTTCCAGCACGATGTCATAAGGCACTTTCGCCTCCGCCAACAGCACGTTCATATGCCCCGGCAGGCGACCCGCCACCGGATGAATGCCGAAACGCACGTTGATACCGCGTGCACGCAGTTTTTCGGTGATTTCCGCCACCGGATACTGCGCCTGC # Questionable array : NO Score: 2.67 # Score Detail : 1:0, 2:0, 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 : ACCGGGGTTTCTGAGCGCAGCCAA # 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: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [48.3-48.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.37,0 Confidence: MEDIUM] # Array family : NA // Array 1 109074-108206 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATN01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 04.O.05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109073 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 109012 29 100.0 16 ............................. CAGGAGTGGCTGGAGA Deletion [108968] 108967 28 79.3 32 C...-.GT.AA.................. AATCCCGATGATCATGAATATTTCTGGCGCCA T [108954] 108906 29 100.0 32 ............................. TTTTATAACGACACTAAAACCCGCCAGTTATA 108845 29 100.0 32 ............................. ATTTTAACGGCAAGGTCGACAGGAGATACCAC 108784 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 108723 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 108662 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 108601 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108540 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 108479 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 108418 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108357 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 108296 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 108235 29 93.1 0 A...........T................ | A [108208] ========== ====== ====== ====== ============================= ================================ ================== 15 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGGTAGCCTTCAGACACTTTAGCCAGGTTCCCTAGTGACACTTTAGCCAGGTTCCCTAGTGTTCCCCGCGCCAGCGGGGATAAACCGAGCGAAAATAAAGACGACGAACTCGTCACAACGTGTTCCCCGCGCCAGCGGGGATAAACCGCGCACCTGCCGGGACATGACCCTGCCGGAGCTGTGTTCCCCGCGCCAGCGGGGATAAACCGGTCATTTTCTTGTTAATGGCGCTTGCATTAACGTGTTCCCCGCGCCAGCGGGGATAAACCGCTGTGTGGTCTGTGCATAACGGTGTAACAGAGGTGTTCCCCGCGCCAGCGGGGATAAACCGCTGGGAAGATTGGGCGCTTTCAATATCTTCCAGTGTTCCCCGCGCCAGCGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.08, 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: F [4-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 109660-109241 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATN01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 04.O.05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================== ================== 109659 29 100.0 32 ............................. GAGGCGCTGGCCGCGCTGGCCGCAGAAAAATT 109598 29 100.0 56 ............................. GTAGCCTTCAGACACTTTAGCCAGGTTCCCTAGTGACACTTTAGCCAGGTTCCCTA 109513 29 100.0 32 ............................. AGCGAAAATAAAGACGACGAACTCGTCACAAC 109452 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 109391 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 109330 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 109269 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================================== ================== 7 29 100.0 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CTGGGAAGATTGGGCGCTTTCAATATCTTCCAGTGTTCCCCGCGCCAGCGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGTGTTCCCCGCGCCAGCGGGGATAAACCGAAAAATAGTCCTGAACGATAGCCCGCGCGGTCGTGTTCCCCGCGCCAGCGGGGATAAACCGCAGGAGTGGCTGGAGACTGTCGTCAAGCCTAGCGGGGATAAACCGAATCCCGATGATCATGAATATTTCTGGCGCCAGTGTTCCCCGCGCCAGCGGGGATAAACCGTTTTATAACGACACTAAAACCCGCCAGTTATAGTGTTCCCCGCGCCAGCGGGGATAAACCGATTTTAACGGCAAGGTCGACAGGAGATACCACGTGTTCCCCGCGCCAGCGGGGATAAACCGGATCATCACCCAGGC # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:-0.15, 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 [36.7-70.0]%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 126462-125946 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATN01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 04.O.05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 126461 29 100.0 32 ............................. GCGACTGGCTTGTCAGCACGCCGTTAGTCGCC 126400 29 100.0 32 ............................. AAATTGTCTGATAGATTGGCAAAAGCGATGGA 126339 29 100.0 32 ............................. GCATCCCGTACAACAGGATCATCCCATTTATT 126278 29 100.0 32 ............................. CCAACTGTCCTAAAGCAAATCCCGGCTTAGGC 126217 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 126156 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 126095 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 126034 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 125973 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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], //