Array 1 1-880 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTG01000046.1 Salmonella enterica strain CVM 43841 43841_contig_46, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 26 89.7 32 ---.......................... GCGACATCAAAATCTATTTTTCATTCTATCTG 59 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 120 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 181 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 242 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 303 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 364 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 425 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 486 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 547 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 608 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 669 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 730 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 791 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 852 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : AAAACCGTACAACAGACAAAATATAAATATTGGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-46.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.68 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 261-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTG01000047.1 Salmonella enterica strain CVM 43841 43841_contig_47, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ============================================================================================= ================== 260 19 65.5 32 ----------................... TATTTCGCCTTCGGCACTGACGTCACCGTCAA 209 29 100.0 32 ............................. ATCGAATCGAAACCCCAGCCACAGAAATAATT 148 29 100.0 93 ............................. GCTCATGTCAAACGCCATCAGCGTTCCGGCATCGGTTTATCCCCGCTAGCGCGGGGAACACAATCGCCAGCCTCGGAAATATTCCATCCTCCG 26 26 89.7 0 ..........................--- | ========== ====== ====== ====== ============================= ============================================================================================= ================== 4 29 88.8 53 CGGTTTATCCCCGCTGGCGCGGGGAACAC # Left flank : | # Right flank : A # Questionable array : NO Score: 3.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.44, 5:0, 6:0.25, 7:-2.24, 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 : CGGTTTATCCCCGCTGGCGCGGGGAACAC # 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 [1,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # 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 [0,0.37 Confidence: MEDIUM] # Array family : NA // Array 1 1-1127 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTG01000013.1 Salmonella enterica strain CVM 43841 43841_contig_13, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 26 89.7 32 ---.......................... GCTGAGATAATTGCCGATCATCTTGAAGACAT 59 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 120 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 181 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 242 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 303 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 364 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 426 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 488 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 550 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 611 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 672 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 733 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 794 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 855 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 916 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 977 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 1038 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 1099 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================= ================== 19 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : CGTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # 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 [2-3] 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 59-328 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTG01000048.1 Salmonella enterica strain CVM 43841 43841_contig_48, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 59 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 120 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 181 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 242 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 303 26 89.7 0 ..........................--- | Deletion [329] ========== ====== ====== ====== ============================= ================================ ================== 5 29 95.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTCCCCGCGCCAGCGGGGATAAGCCGCGTCACTTTCTGACATTTTATTCAGTTCGTTAG # Right flank : C # Questionable array : NO Score: 5.78 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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: NA [4,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-9.80,-9.60] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [46.7-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.77,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //