Array 1 109485-108418 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATO01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 03.O.05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109484 29 96.6 32 ...............A............. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 109423 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 109362 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 109301 29 100.0 32 ............................. CTGGGTAGATTGGGCGCTTTCAATATCTTCCA 109240 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 109179 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 109118 29 100.0 32 ............................. TTTTATAACGACACTAAAACCCGCCAGTTATA 109057 29 100.0 32 ............................. ATTTTAACGGTAAGGTCGACAGGAGATACCAC 108996 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 108935 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 108874 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 108813 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 108752 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108691 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 108630 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108569 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 108508 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 108447 29 93.1 0 A...........T................ | A [108420] ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGGAGGCGCTGGCCGCGCTGGCCGCAGAAAAATTGTGTTCCCCGCGCCAGCGGGGATAAACCGGTAGCCTTCAGACACTTTAGCCAGGTTCCCTAGTGTTCCCCGCGCCAGCGGGGATAAACCGGAGGCGCTGGCCGCGCTGGCCGCAGAAAAATTGTGTTCCCCGCGCCAGCGGGGATAAACCGGAGGCGCTGGCCGCGCTGGCCGCAGAAAAATTGTGTTCCTCGCGCCAGCGGGGATAAACCGAAAAATAGTCCTGAACGATAGCCCGCGCGGTCGTGTTCCCCGCGCCAGCGGGGATAAACCGAGCGAAAAAAAAGACGACGAACTCGTCACAACGTGTTCCCCGCGCCAGCGGGGATAAACCGCGCACCTGCCGGGACATGACCCTGCCGGAGCTGTGTTCCCCGCGCCAGCGGGGACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTGCATTAAC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-13.3]%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], // Array 2 110011-109616 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATO01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 03.O.05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 110010 29 100.0 32 ............................. GAGGCGCTGGCCGCGCTGGCCGCAGAAAAATT 109949 29 100.0 32 ............................. GTAGCCTTCAGACACTTTAGCCAGGTTCCCTA 109888 29 100.0 32 ............................. GAGGCGCTGGCCGCGCTGGCCGCAGAAAAATT 109827 29 100.0 32 ............................. GAGGCGCTGGCCGCGCTGGCCGCAGAAAAATT 109766 29 96.6 32 .......T..................... AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 109705 29 100.0 32 ............................. AGCGAAAAAAAAGACGACGAACTCGTCACAAC 109644 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGTTTTTAGAACAAATATATAGTTTTAGT # Right flank : CGCACCTGCCGGGACATGACCCTGCCGGAGCTGTGTTCCCCGCGCCAGCGGGGACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTGCATTAACGTGTTCCCCGCGCCAACGGGGATAAACCGCTGTGTGGTCTGTGCATAACGGTGTAACAGAGGTGTTCCCCGCGCCAGCGGGGATAAACCGGTCATTTTCTTGTTAATGGCGCTTGCATTAACGTGTTCCCCGCGCCAGCGGGGATAAACCGCTGTGTGGTCTGTGCATAACGGTGTAACAGAGGTGTTCCCCGCGCCAGCGGGGATAAACCGCTGGGTAGATTGGGCGCTTTCAATATCTTCCAGTGTTCCCCGCGCCAGCGGGGATAAACCGAAAAATAGTCCTGAACGATAGCCCGCGCGGTCGTGTTCCCCGCGCCAGCGGGGATAAACCGCAGGAGTGGCTGGAGACTGTCGTCAAGCCTGAGTG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [23.3-71.7]%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 127220-126297 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATO01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 03.O.05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================================================== ================== 127219 29 100.0 66 ............................. NNNNNNNNNNNNTCGCGCCAGCGGGGATAAACCGAAAAATAGTCCTGAACGATAGCCCGCGCGGTC 127124 29 100.0 32 ............................. GCGACTGGCTGGTCAGCACGCCGTTAGTCGCC 127063 29 100.0 69 ............................. AAATTGTCTGATAGATTGGCAAAAGCGATGTAAACCGCGCACCTGCCGGGACATGACCCTGCCGGAGCT 126965 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 126904 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 126843 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 126782 29 100.0 63 ............................. CCAACTGGCCTAAAGCAAATCCCGGCTTAGGCGCACCTGCCGGGACATGACCCTGCCGGAGCT 126690 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 126629 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 126568 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 126507 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 126446 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 126385 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 126324 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ===================================================================== ================== 14 29 98.5 40 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.74 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.44, 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], //