Array 1 1-1369 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFB01000113.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44692 N44692_contig_113, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 28 96.6 32 -............................ GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 61 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 122 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 183 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 244 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 305 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 366 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 427 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 488 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 549 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 610 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 671 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 732 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 793 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 854 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 916 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 977 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1038 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1099 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1160 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1221 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1282 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1343 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [2-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-210 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFB01000142.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44692 N44692_contig_143, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 28 96.6 32 -............................ AAAATGCAGGTGGGGTAACGAATGCGAGATTG 61 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 123 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 184 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 4 29 97.4 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 5.73 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 [-10.50,-8.90] 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: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 107373-106081 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFB01000023.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44692 N44692_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107372 28 96.6 32 -............................ TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107312 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107251 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107190 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107129 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107068 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107007 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106946 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106885 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106824 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106762 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106659 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106598 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106537 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106476 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106415 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106354 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106293 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106232 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106171 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106110 29 96.6 0 A............................ | A [106083] ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.13, 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 [3-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //