Array 1 1975782-1974244 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP028199.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN018746 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1975781 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1975720 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1975659 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1975598 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1975537 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1975475 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1975414 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1975353 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1975292 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1975231 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1975170 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1975109 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1975048 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1974987 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1974926 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1974865 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1974804 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1974742 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1974639 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1974578 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1974517 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1974456 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1974395 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1974334 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1974273 29 96.6 0 A............................ | A [1974246] ========== ====== ====== ====== ============================= ========================================================================== ================== 25 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.10, 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: R [50.0-71.7]%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], // Array 2 1993895-1991914 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP028199.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN018746 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1993894 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1993833 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1993772 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 1993711 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 1993650 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 1993589 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 1993528 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 1993467 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 1993406 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 1993345 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 1993284 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 1993223 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1993162 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1993101 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1993040 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1992979 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1992918 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1992857 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1992796 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 1992735 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 1992674 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 1992613 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1992552 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1992491 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1992429 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1992368 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1992307 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1992246 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1992185 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1992124 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1992063 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1992002 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1991941 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [10-0] 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], //