Array 1 8830-7337 **** Predicted by CRISPRDetect 2.4 *** >NZ_LFGX01000529.1 Salmonella enterica subsp. enterica serovar Typhimurium strain Sal368 contig_564, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8829 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 8768 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 8707 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 8646 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 8585 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 8524 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8463 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8402 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8341 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8280 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8219 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8158 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8097 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 8036 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7975 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7914 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7852 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7791 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7730 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7669 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7608 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7547 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7486 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7425 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7364 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTGAGGTGGACTATTCACGCT # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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], // Array 1 4811-3884 **** Predicted by CRISPRDetect 2.4 *** >NZ_LFGX01000156.1 Salmonella enterica subsp. enterica serovar Typhimurium strain Sal368 contig_164, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 4810 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 4749 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 4688 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 4627 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 4565 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 4462 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 4401 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 4340 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 4279 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 4218 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 4157 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 4096 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 4035 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3974 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3913 29 96.6 0 A............................ | A [3886] ========== ====== ====== ====== ============================= ========================================================================== ================== 15 29 99.5 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCGTCACTACCGAGACCGAGACCGAGACCGAGAGTGTTCCCCGCGCCAGCGGGGATAAACCGCCGCTGACGCACTGGATCAACCTGACGCAACGGTGTTCCCCGCGCCAGCGGGGATAAACCGTTGCAGGGCGATATTGTTGTTGGTGAATGGGAGTGTTCCCCGCGCCAGCGGGGATAAACCGCGTCGCGGAAAATTTCGCATTGACGATAAAGAGTGTTCCCCGCGCCAGCGGGGATAAACCGTTACGTGTTTATTCATCTGTTGCATTAGATTCGTGTTCCCCGCGCCAGCGGGGATAAACCTGAGGCGTACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCGGGGATAAACCGACGCCCCGAATGTGTTTGCCTCGCCCGCTGCCGTGTTCCNNNNNNNNNNGAACACGATCGAGTAACGTGCGCTGGAACGCGTCGGCGCGGGGATAAACCGTGGATTATCTGTATTTTACGGAAGTGGGCGCG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.19, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-43.3]%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], // Array 2 5827-4943 **** Predicted by CRISPRDetect 2.4 *** >NZ_LFGX01000156.1 Salmonella enterica subsp. enterica serovar Typhimurium strain Sal368 contig_164, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5826 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 5765 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 5704 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 5643 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 5582 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 5521 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 5460 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 5398 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 5337 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 5276 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 5215 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 5154 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 5093 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 5032 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 4971 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 15 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCCGTGTTCCNNNNNNNNNNGAACACGATCGAGTAACGTGCGCTGGAACGCGTCGGCGCGGGGATAAACCGTGGATTATCTGTATTTTACGGAAGTGGGCGCGGTGTTCCCCGCGCCAGCGGGGATAAACCGGTCGTTCATCAGGCACTACCGGCACTTTCTGGGTGTTCCCCGCGCCAGCGGGGATAAACCGATATTCGCCGCTTTCCATTTACCGAACGTAACGTGTTCCCCGCGCCAGCGGGGATAAACCGCCACGTTCGGCGATGTTGGCCCCATCGGTCCAGTGTTCCCCGCGCCAGCGGGGATAAACCGAAACGGTAGTGTTTTAAAACCGTTTCGAGGTGCGTGTTCCCCGCGCCAGCGGGGATAAACCGAATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATCGTGTTCCCCGCGCCAGCGGG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [30.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //