Array 1 1461-29 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROT01000068.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN011 contig6_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1460 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 1399 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 1338 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 1277 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 1216 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 1155 29 100.0 32 ............................. GCTGAAGCGCCAGGATACCCTGAAACGCTACC 1094 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 1033 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 972 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 911 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 850 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 789 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 728 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 667 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 606 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 545 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 484 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 423 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 362 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 301 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 240 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 179 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 118 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 57 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 24 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GCCGGACGACCCGATGGGGATCCTGCCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: R [13.3-68.3]%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 1 108239-107862 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROT01000067.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN011 contig6_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 108238 29 100.0 74 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCATGTGTTCCCCGCGCCAGTTCTTCAGCTGGCAACGACAGAATGC 108135 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 108074 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108013 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 107952 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 107891 29 100.0 0 ............................. | A [107864] ========== ====== ====== ====== ============================= ========================================================================== ================== 6 29 100.0 41 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACGACCCGATGGGGATCCTGCCGTTGC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.61 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:-0.64, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-16.7]%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 1 7954-6219 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROT01000069.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN011 contig6_8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 7953 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 7892 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 7831 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 7770 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 7709 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 7648 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 7587 29 100.0 32 ............................. TAACCATGGCTAAGAAAAAAACTTACAGGACT 7526 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 7465 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 7404 29 100.0 32 ............................. CAGGCTGGTGCCATAGTTTTGAGTTTCTACCG 7343 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 7282 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 7221 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 7160 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 7099 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 7038 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 6977 29 100.0 32 ............................. CCTCAATTTTGTCTTCACCCAGCCATATTTGC 6916 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 6855 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 6794 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 6733 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 6672 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 6611 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 6550 29 100.0 32 ............................. CTCCCCCGCCTGATAATTACGCCATCTGCAAT 6489 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 6428 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 6367 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 6306 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6246 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 29 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //