Array 1 1076371-1076825 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079836.1 Salmonella enterica subsp. salamae strain LHICA_SA1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1076371 29 100.0 32 ............................. CCGTTTTTACTGCCAACTCATCATTCATTCCA 1076432 29 100.0 32 ............................. GTGCTGGACCTCGATTTATTTAATACGTTTAT 1076493 29 100.0 32 ............................. TTGCCGGTTTTGTACGTGGAGTAATCAAAACC 1076554 29 100.0 32 ............................. CTACCTACGGAACGGAACGAGAGTTACTTGAT 1076615 29 100.0 32 ............................. CTACCTACGGAACGGAACGAGAGTTACTTGAT 1076676 29 100.0 32 ............................. GTACACACATGAAACCTATCACCCTGTTTAAT 1076737 29 96.6 32 ............................C TGTATGTCGTTAATATGGGGATCGCTGAGGTC 1076798 28 86.2 0 ....C........C.........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 97.9 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGTCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGCATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTATCAATCTTACGGACGGCCTGTCGTTGCCGTCTGTGACTCATCTATTACCTTGCATTGTCTATTTTCTCTATACGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTCCCATAGCGAGGCATGGATCACGCTATTTTGGTAAATTAAAAGAAAAAATTATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTACGTTGGTAGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGATATACATTTAGA # Right flank : GTTGCATAATCATAATCTGTATACCAGTAATGGCCGGTACAAACCTGTAAAGTAAAAAGGCCGCATTTTCCCGGGGAGGCTTTTATACAGGAGAAAGCCATGGCGTTAACGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGACAAATCATTAAGGGCCAGACCAGGATTAAGCCTGTTGGTCCAGGATGAGTCTACGTCGATCTTGTTCGACACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACTTGTCCGATGTGCCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCAGATATTGCGCGCGAACGCTATGCGGCAATGACTTTTCTCGGTATTACCCGAAGAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGGTGTACACGCGTGACCCTCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 1092893-1094509 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079836.1 Salmonella enterica subsp. salamae strain LHICA_SA1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1092893 29 96.6 32 .........A................... CCTCTCCCGATAATTTGTATCCACCGGGTTTC 1092954 29 96.6 32 .........A................... GCTATCACCGCGGCGCATAGCCTTACCTATTT 1093015 29 96.6 32 .........A................... CTGCCGGGGGCACAGGTTCATATTCCAGAAAA 1093076 29 96.6 32 .........A................... ATCCGGCTGTTTTCCCGGCAGATTGACGGTAA 1093137 29 96.6 32 .........A................... GCGGGCTCAGGCGGGGCGATCGAGGGGAGTAG 1093198 29 96.6 32 .........A................... CAGATCTACGTTTCGTTCGGTGTAAAGCAGAG 1093259 29 96.6 32 .........A................... CAGATAGGTATCTATACATGTTGATTAATTCC 1093320 29 96.6 32 .........A................... CGACTTTGTGTACTGAGGGCTAACCCATGACC 1093381 29 96.6 32 .........A................... TCATCAGCAACTGCGTCGTATTCTTCCTTGGT 1093442 29 96.6 32 .........A................... GGAAAACGGAAATTGTCCGCATGTTGAAAACC 1093503 29 96.6 32 .........A................... TTCCAGAATGGTGCGTTCTACTTTTTGCGCTG 1093564 29 100.0 32 ............................. GAGTGGAGCAACAAAACGGACTGGGTGCAGGG 1093625 29 100.0 32 ............................. TCGGTGATACTTCGTCGCTGTCGTCTCATGCC 1093686 29 100.0 32 ............................. CGTCGGGCAGGCGGTAACAATTGCGCCCGCTT 1093747 29 100.0 32 ............................. ATGTTCGCGAGCCAGTGAGTAATCGTGAAATC 1093808 29 100.0 32 ............................. TGATCGGTCAACTGTCCAACTGTCGGGAATTT 1093869 29 100.0 32 ............................. AACGACAAAACCCACTGGGTAATTTTTGTTAA 1093930 29 100.0 32 ............................. AAATTAAAGTCGCGCGCGATCGGGCGTTTGCG 1093991 29 100.0 32 ............................. GATCGTGCTTCAAGACACTGGCGTAATATGCG 1094052 29 100.0 33 ............................. TTCTCGCTCTCCATTCCACACCTTGCCGCTGAC 1094114 29 100.0 32 ............................. CCGCTCATAACGTCGATTTTTACGGGGATAAT 1094175 29 100.0 33 ............................. GAACAGGATTTTACTGGCTCCCTCCATCGCTGC 1094237 29 100.0 32 ............................. TAACCAGGGAAAGCCATCTTTTCATTAATTAA 1094298 29 100.0 32 ............................. CTGTTCTGTTATCAGAGTGCCGTCAGCATCGC 1094359 29 96.6 32 .............T............... CAACTGCTTAACGTTCAGATCGAGAATGAAAA 1094420 29 100.0 32 ............................. CTAAACCAGTTGCTCCATTCTGGTGCCTGGCC 1094481 29 89.7 0 ............C..............GC | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.1 32 GTGTTCCCCGCGTCAGCGGGGATAAACCG # Left flank : GTGCTAGCCGCCGGAGAAATCGAACGCCCTCAACCTGCGCCGGATATGTTGCCGCCAGCAATACCTGAGCCGGAATATCTGGGTGACAGCGGACATCGGGGGCATGGTTAATGAGCATGGTGGTGGTGGTGACAGAAAACGTACCGCCGCGCCTGCGAGGGCGGCTTGCCATATGGTTACTGGAGATTCGTGCAGGGGTTTATGTTGGCGATACATCGAAACGCATTCGAGAGATGATCTGGCAACAGATTACACAACTGGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGGGAAAACCGCCGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCCCTTTAAAATCAATGAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTAACGTTGGTAGTTTGTTGAGTGGTAAAAAAAGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : CTTTTCACCAGCAGATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGTTCAATCCGTCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGACATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGACGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCTGCGTCGCTCATTC # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.81, # 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 : GTGTTCCCCGCGTCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCACGTCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGTCAGCGGGGATAAACCG 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 [0-4] 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 [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 2343294-2343444 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079836.1 Salmonella enterica subsp. salamae strain LHICA_SA1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2343294 29 100.0 32 ............................. CAATTCGTCTATATCACACAGCAATTTCCCCC 2343355 29 100.0 32 ............................. GTTCAGGTTTCGCGTCATCTGACGTTGGTAAT 2343416 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGAGAGCGGGGATAAACCG # Left flank : TGCTGTTCCCGTTCTCGCGTCTGGTGCATATCTGGAGCGTGCCGGTTGAGTATCTGACCCGTAAATATCAGCTTGTTCGCGCACGTCACTGATTGTGTGCTGATTATCTCAAGCCGCCGTGGGGCTGAGGCGTATTCAGCACTATAGCGGGAAAATAGCGCGGGCATGGAGATTGACTTCATGCCCGTTTTTTTGCATTTCCTATCGGGTTCATCCCGTACCTCACGACCTGCCGCAGACGCTCCCTTGAGCTCTTCGCCGACGATATGTGCAAAATCTTACTCCCCCTTGATGTAATGATGTATTAATCCCCGAATTTTCCGTCATACGACACTCGGCATAGTATGTTGGTAGATTTTAAGAGAGAATCATGGGCGTGGTTTTTTATTATATGAAATCAATTGGTTATATGCTCTTTAATAATGCGGTATTGTTATTTATGTGTTGGTAAGATGTTGCTGTGTGAAAATGTTGTTTATAAACATAGGGATGGCACTAGA # Right flank : GGTCACGAGGTGATTCACTTGGTACTGGCTGATGTGTTCCCCGCGCGAGCGCTGAGTTTGTGGGGTTAGTTCACTCCGGCAGGTTTTTTATGGCTGTTTGCCGGATGGCGGCGTAAATGCCTTATCCGGCACCGATCTTATCTCGGCGTTGCCTATTTTTATAGTGAAGGCATGCCTCAGGATTATCGTCAGCTTCTCATCCTTCCCCGTACGGAGAAATATGAGGCAGTGTGCTTAACGGGGATAATATATGCGACGTAAGTGATGGTGGTGGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTTCGGGTCGTTGCCTGCGGCAACGCTTTCTCGCTGCGCTCGAATCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGTACGGAGAAATATGAGGCAGTATGCTTAATGGGGATAATATACGCGACGGAAGTGATGGTGGTGGGGGAAGGATTATTCGTCGCTCCGCTCCTCACCCTCCGGGTCGTTGCCTGC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 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 : GTGTTCCCCGCGAGAGCGGGGATAAACCG # 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 [6,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGAGAGCGGGGATAAACCG 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [63.3-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //