Array 1 972789-973609 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060134.1 Salmonella enterica subsp. enterica serovar London strain HA1-SP5 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 972789 29 100.0 32 ............................. GACTACCCGGCATTTGTGGACGCATATCGGCA 972850 29 100.0 32 ............................. CTTCCAGTTTTTTCCCTGCCTTTTGGGCGGCG 972911 29 100.0 32 ............................. TACCTGACGCTGATCCAGTCGATCGCGCTGCT 972972 29 100.0 32 ............................. ATTTTCTTTGCGCCCGTACTCAACGTGGGAGG 973033 29 96.6 32 ............................A TCGCCCCGAGGTCGTTCACGACGTCCTCGTGC 973094 29 100.0 32 ............................. CGTTACTCCAGACAATAGAGCGCCTCACCACT 973155 29 100.0 32 ............................. CATAGGGGCCGCAGAAGTTGCCACAACCACAA 973216 29 100.0 32 ............................. GGGTCAATGTTGATGCCGGGGTGTGTTGTTAC 973277 29 100.0 32 ............................. GGAACTCATGCTTTTACCTGATGCGGCGGCAC 973338 29 96.6 32 ..........T.................. CGAGGCGGCATCAAAGACGACGAAACACCATG 973399 29 100.0 32 ............................. GATTTTCCCGCGTTGGTTGTATGCCGTGCGTG 973460 29 100.0 32 ............................. CGCGTATTAAACGGGCAGATCGAGGAAACAAC 973521 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 973582 28 93.1 0 .......................-.G... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGTGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 983017-984267 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060134.1 Salmonella enterica subsp. enterica serovar London strain HA1-SP5 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 983017 29 96.6 32 ...........................T. CCAGCGGAGAGCGAGCTATACCAGGCTCAATC 983078 29 96.6 32 ...........................T. TCCGGAAAATCTACCGTTCCAGGGCGGGGCCG 983139 29 96.6 32 ...........................T. GGAACCAAGTATACGCGTAGACAGCGTCAACG 983200 29 100.0 32 ............................. GAATTGGCGTATCTGTGTCTTGCCAGACAGGG 983261 29 100.0 32 ............................. CGTAGACCACCTCTTTCGATATGTGAGTGAAG 983322 29 100.0 32 ............................. GTTAGGGAAGGTACTCCTGGCTAATTCTTTTG 983383 29 100.0 32 ............................. ACATAATCCCCATGTACATAATTTATGCTCCG 983444 29 100.0 32 ............................. ATCCAGCAGAGCTACAGGAACGCCGCAAGGCC 983505 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 983566 29 100.0 32 ............................. TTAAATGCATCGCGATCCCTTGCAATTATAAC 983627 29 100.0 32 ............................. CCGGGATCCGTCATCGGTCGTGGTTCACTGCA 983688 29 100.0 33 ............................. GGCACGTTTACCGTTCCGGCTGGGGTTTATCGT 983750 29 100.0 32 ............................. GGCGGATCCACGATAATTTTGTCGTTATGTAT 983811 29 100.0 32 ............................. TCCCCCCGGAGGCTGTACCAAAAATCGTAGAA 983872 29 100.0 32 ............................. GCGCTATTGTATATCGACCATAAACATCGGCT 983933 29 100.0 32 ............................. TCCCTGCTGGCCGTTCTGGAATTGCGTAGCGC 983994 29 100.0 32 ............................. CCGGAGCCTGACCAGGATTTTTCCGCCGTGTA 984055 29 100.0 32 ............................. GAATTGCAGGAGTGGTTTATCGAGTGTTTACA 984116 29 100.0 32 ............................. AATCAACGGATCTTGCTAATGTAGTTTCTGCA 984177 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 984238 29 93.1 0 A...........T................ | A [984264] ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCCTGGTTTGCCGACAGCAATAAAAAAGCGTTGTTGGCGGAGGTTGGTGTAGGCACGTTGGATCAGGCGATGATGGCGGTAATGCCATTTAAACATAACAACCTGCGGTTACTGGGTCTTAGCAACAAGATTTTACTGGCGGATGAGATCCATGCCTGTGATGCATGGATGTCCCGAATACTTGAAGGTTTGATCGAACGGCAGGCCAGTAATGGCAACGCCACTATTCTGTTATCTGCGACGCTATCGCAGCAGCAGCGAGATAAGCTGGTGGCGGCATTTTCCCGTGGGGTGAGGCGTAGTGTGCAGGCGCCGTTGCTAGGCCATGACGATTATCCCTGGCTGACTCAGGTCACACAAACAGAGCTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAGCGTAGCGTAGATATTGGCTGGCTACATAGTGAAGAGTCGTGTCTTGAACGTATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATAC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [55.0-48.3]%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], //