Array 1 97308-98678 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYPM01000002.1 Salmonella enterica strain CVM 43743 43743_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 97308 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 97369 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97430 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 97491 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 97552 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 97613 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 97674 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 97735 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 97796 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 97857 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 97918 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 97979 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98040 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98101 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98162 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98223 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98284 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98345 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 98406 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 98467 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 98528 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 98589 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 98650 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1047-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYPM01000067.1 Salmonella enterica strain CVM 43743 43743_contig_67, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1046 28 96.6 33 -............................ CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 985 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 924 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 863 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 802 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 741 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 680 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 619 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 558 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 497 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 436 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 375 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 313 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 210 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 149 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 88 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ========================================================================== ================== 17 29 99.2 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.16, 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: 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: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 7532-7321 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYPM01000068.1 Salmonella enterica strain CVM 43743 43743_contig_68, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 7531 28 96.6 32 -............................ CAGGTTATGCGCAAAAATTAATTCATATTATA 7471 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7410 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7349 29 75.9 0 ...............A.AA.....GC.GT | ========== ====== ====== ====== ============================= ================================ ================== 4 29 92.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGCG # Questionable array : NO Score: 3.66 # Score Detail : 1:0, 2:3, 3:0, 4:0.61, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 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: 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [7-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [61.7-0.0]%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 50-384 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYPM01000030.1 Salmonella enterica strain CVM 43743 43743_contig_30, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 50 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 111 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 172 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 233 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 294 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 355 29 96.6 0 A............................ | A [381] ========== ====== ====== ====== ============================= ================================ ================== 6 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGGCACTATTTCGAATGTCTCGACGCCAGATTTAG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [40.0-48.3]%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], //