Array 1 1-1659 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIX01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46852 N46852_contig_20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1 28 96.6 32 -............................ CAACCAGGCTGGATCGTAACTCCTATCCCCTC 61 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 122 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 184 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 245 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 306 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 367 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 428 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 489 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 550 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 611 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 672 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 733 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 794 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 855 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 916 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 978 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1081 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1142 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1203 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1264 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1325 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1386 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1447 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1508 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1569 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1630 29 93.1 0 A........A................... | A [1656] ========== ====== ====== ====== ============================= ========================================================================== ================== 27 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.09, 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 [1-4] 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 1-1371 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIX01000104.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46852 N46852_contig_105, 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 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # 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 [2-5] 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], //