Array 1 272-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYL01000065.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40384 N40384_contig_65, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 271 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 210 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 149 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 88 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 88302-90632 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYL01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40384 N40384_contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88302 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88363 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88424 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 88485 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 88546 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 88607 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 88668 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 88729 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 88790 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 88851 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 88912 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 88973 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 89035 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 89096 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 89157 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 89218 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 89279 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 89340 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 89401 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 89462 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 89523 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 89584 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 89645 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 89706 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 89767 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 89828 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 89889 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 89951 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 90012 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [90054] 90054 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 90115 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 90176 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 90237 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 90298 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 90359 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 90420 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 90481 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 90542 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 90603 29 96.6 0 A............................ | A [90629] ========== ====== ====== ====== ============================= ================================= ================== 39 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.03, 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 [4-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%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], //