Array 1 640-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEF01000024.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43472 N43472_contig_24, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 639 29 100.0 32 ............................. AATACTATCCTGCAATGCGCTACCACGTTACT 578 29 100.0 32 ............................. TGATAACGCATGGGAGTCCAGATTACAAATTC 517 29 100.0 32 ............................. TGCTGGATACACGCGTTTCAATGGTCAGAGTT 456 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 395 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 334 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 273 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 212 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCAGACCGATCGACTA 151 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 90 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 11 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGAAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : G # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: 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 51-628 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEF01000039.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43472 N43472_contig_39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 51 29 100.0 32 ............................. GAGGCTATCGGGACACAGGCAAACGTCGTGGC 112 29 100.0 32 ............................. TTTGGTTGATGCGTCAAACCTCGCTAACTTTG 173 29 100.0 32 ............................. GCGGAATAATAAATGGAGTGCCATTTGTAGCA 234 29 100.0 32 ............................. GAGCGATGTTGGCATGGCATTGGTTTACTGTA 295 29 100.0 32 ............................. TAGAGCCGTGTGTTAGCAGATAATCAGTATTA 356 29 100.0 32 ............................. AAGCCGGACCACATTTTTCTTGCCGAACTCAC 417 29 100.0 32 ............................. GCTGTTGCCGACGTCGGGCTTAAACACCACTG 478 29 100.0 32 ............................. GACGCTTCACCTGCATCAAATTCTCCTCCAGT 539 29 100.0 32 ............................. GCGGGCAACAATTTTAGAGGGGCTGCATTCGC 600 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGCGGTACGACGTAAACTGCGCGCCCGGACTGATG # Right flank : | # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [30.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 16823-16185 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEF01000035.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43472 N43472_contig_35, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16822 29 100.0 32 ............................. GATTGCTCAGATTGGGAATTTGACCAGCGGCC 16761 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 16700 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 16639 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 16578 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 16517 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 16456 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 16395 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 16334 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 16273 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 16212 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 11 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGGATAAACCGGGAACTGGTTTAGCTATCGCTGCCGGGGCTA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-31.7]%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], // Array 1 108978-108031 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEF01000014.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43472 N43472_contig_14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108977 29 100.0 33 ............................. CGCACGCGGGTTGCGTAACGGATATACGACAGC 108915 29 100.0 32 ............................. TCGCAGAACAGCTCTGCTTCCTTTGCGGAGAC 108854 29 100.0 32 ............................. TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 108793 29 100.0 32 ............................. GGACAGCACAGTTGATTACAGCAAAATTTACG 108732 29 96.6 32 ............T................ ACACGCCAGCCAACAATATTAATTTTGTCGTC 108671 29 100.0 32 ............................. CCTTGGCGGCAGCCACCTGAGCAACTGTCGGG 108610 29 100.0 32 ............................. CAGCTTCTTAACGAGGAGATTAACAGCGACGT 108549 29 100.0 32 ............................. ACTGTAGTTGCGGGTCAGGTTCCGGAATATCA 108488 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 108426 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 108365 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 108304 29 100.0 32 ............................. CACCCAGCGGGTAAACTGATCAGCAGCAGCAC 108243 29 100.0 32 ............................. AACCCTCAGAAAATAATCCAGACGTTACCGAA 108182 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 108121 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 108060 29 93.1 0 A..............A............. | A [108033] ========== ====== ====== ====== ============================= ================================= ================== 16 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGACTACATAGATAACCAAAAATCCACTGGCAAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGAAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-43.3]%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], //