Array 1 272099-272884 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATW01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 30.H.04, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================== ================== 272099 29 100.0 32 ............................. GCGACTGGCTGGTCAGCACGCCGTTAGTCGCC 272160 29 100.0 32 ............................. AAATTGTCTGATAGATTGGCAAAAGCGATGGA 272221 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 272282 29 100.0 32 ............................. CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 272343 29 100.0 58 ............................. GTTAAGGGGGAGTGAGAAGCAGAACGGCATCCCGGACAACAGGATCATCCCATTTATT 272430 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 272491 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 272552 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 272613 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 272674 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 272735 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGACGGCAA 272796 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 272857 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ========================================================== ================== 13 29 98.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.09, 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 289171-290593 **** Predicted by CRISPRDetect 2.4 *** >NZ_CATW01000001.1 Salmonella enterica subsp. enterica serovar Agona str. 30.H.04, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 289171 29 100.0 32 ............................. GAGGCGCTGGCCGCGCTGGCCGCAGAAAAATT 289232 29 100.0 32 ............................. GTAGCCTTCAGACACTTTAGCCAGGTTCCCTA 289293 29 100.0 14 ............................. AGCGAAAAAAAAGA Deletion [289336] 289336 29 69.0 32 CGACGAA.TA................... AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 289397 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 289458 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 289519 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 289580 29 100.0 32 ............................. CTGGGAAGATTGGGCGCTTTCAATATCTTCCA 289641 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 289702 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 289763 29 100.0 32 ............................. TTTTATAACGACACTAAAACCCGCCAGTTATA 289824 29 100.0 32 ............................. ATTTTAACGGCAAGGTCGACAGGAGATACCAC 289885 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 289946 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCAGGCGCCA 290007 29 100.0 40 ............................. GCTAACACGGCGCGTGCGAACACGTTTTCTGGAATATGAA 290076 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 290137 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 290198 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 290259 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 290320 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 290381 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 290442 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 290503 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 290564 29 93.1 0 A...........T................ | A [290590] ========== ====== ====== ====== ============================= ======================================== ================== 24 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 : 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: R [9-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //