Array 1 1-150 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKL01000123.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N48690 N48690_contig_124, 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 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGCGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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: R [0.0-30.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-926 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKL01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N48690 N48690_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1 28 96.6 32 -............................ GTCGTTCATCAGGCACTACCGGCACTTTCTGG 61 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 122 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 183 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 245 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 348 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 409 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 470 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 531 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 592 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 653 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 714 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 775 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 836 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 897 29 96.6 0 A............................ | A [923] ========== ====== ====== ====== ============================= ========================================================================== ================== 15 29 99.3 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.19, 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 [1-3] 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 1553-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKL01000054.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N48690 N48690_contig_54, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1552 28 96.6 32 -............................ GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1492 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1431 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 1370 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 1309 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1248 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1187 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1126 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1065 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1004 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 943 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 882 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 821 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 760 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 699 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 637 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 576 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 515 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 454 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 393 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 332 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 271 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 210 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 149 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 88 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # 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: 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 [5-2] 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: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //