Array 1 950100-952263 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP040562.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SAP17-7399 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 950100 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 950161 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 950222 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 950283 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 950344 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 950405 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 950466 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 950527 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 950588 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 950649 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 950710 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 950771 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 950832 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 950893 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 950954 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 951015 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 951076 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 951137 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 951198 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 951259 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 951320 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 951381 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 951442 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 951503 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 951564 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 951625 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 951686 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 951748 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 951809 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 951870 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 951931 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 951992 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 952053 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 952114 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 952175 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 952236 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-12] 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 968396-969200 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP040562.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SAP17-7399 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 968396 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 968457 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 968518 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 968579 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 968640 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 968702 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 968763 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [968805] 968805 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 968866 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 968927 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 968988 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 969049 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 969110 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 969171 29 96.6 0 A............................ | A [969197] ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.11, 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: F [71.7-48.3]%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], //