Array 1 980718-982271 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP065567.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1078 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 980718 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 980779 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 980840 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 980901 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 980962 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 981023 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 981084 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 981145 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 981206 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 981267 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 981328 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 981389 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 981450 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 981511 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 981572 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 981633 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 981695 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 981756 29 93.1 32 ..........T..............G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 981817 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 981878 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 981939 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 982000 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 982061 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 982122 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 982183 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 982244 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 : 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 [1-12] 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 998403-1000367 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP065567.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1078 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 998403 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 998464 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 998525 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 998586 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 998647 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 998708 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 998769 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 998831 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 998892 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 998953 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 999014 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 999075 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 999136 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 999197 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 999258 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 999319 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 999380 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 999441 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 999502 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 999563 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 999624 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 999686 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 999747 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [999789] 999789 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 999850 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 999911 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 999972 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1000033 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1000094 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1000155 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1000216 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1000277 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1000338 29 96.6 0 A............................ | A [1000364] ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.04, 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 [1-13] 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], //