Array 1 1-330 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINI01000243.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46840 N46840_contig_243, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 60 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 121 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 182 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 243 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 304 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 6 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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: NA [1-1] 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 1-636 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINI01000253.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46840 N46840_contig_254, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 27 93.1 32 --........................... AAAATGCAGGTGGGGTAACGAATGCGAGATTG 60 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 122 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 183 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 244 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 305 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 366 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 427 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 488 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 549 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 610 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 11 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 [1-2] 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: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-260 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINI01000061.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46840 N46840_contig_61, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 16 55.2 32 -------------................ GCAACCCATTAATTAACTAAGCAGTAATAAAC 49 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 110 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 171 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 232 29 89.7 0 A..........................AC | ========== ====== ====== ====== ============================= ================================ ================== 5 29 88.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 5.39 # Score Detail : 1:0, 2:3, 3:0, 4:0.41, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 [5,1] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-2] 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: F [5.28,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-1430 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINI01000148.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46840 N46840_contig_148, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 27 93.1 32 --........................... GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 60 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 121 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 182 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 243 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 304 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 365 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 426 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 487 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 548 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 609 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 670 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 731 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 792 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 853 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 915 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 976 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1037 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1098 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1159 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1220 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1281 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1342 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1403 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [2-10] 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], //