Array 1 21-843 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQI01000031.1 Salmonella enterica strain CVM 43765 43765_contig_31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 21 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 82 29 100.0 33 ............................. GAAACTAGAGAAAGCGTCCCATAATGCCCACAT 144 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 205 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 266 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 328 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 389 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 450 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 511 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 572 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 633 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 694 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 755 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 816 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGGAGGTTGAGGTGGTTGGG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [13.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17126-17399 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQI01000031.1 Salmonella enterica strain CVM 43765 43765_contig_31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17126 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 17187 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 17248 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 17309 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 17371 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CGATAATT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [-14.90,-14.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-10.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-1649 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQI01000033.1 Salmonella enterica strain CVM 43765 43765_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 25 86.2 32 ----......................... GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 58 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 119 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 180 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 241 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 302 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 363 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 424 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 485 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 546 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 607 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 668 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 729 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 790 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 851 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 912 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 970 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 1031 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 1092 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 1153 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 1214 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 1275 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1336 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1397 29 100.0 11 ............................. CGGCCAGCCAT Deletion [1437] 1437 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 1498 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1559 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1620 29 93.1 0 A...........T................ | A [1647] ========== ====== ====== ====== ============================= ================================ ================== 28 29 96.9 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.06, 8:1, 9:0.85, # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [1-12] 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 53-755 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQI01000032.1 Salmonella enterica strain CVM 43765 43765_contig_32, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =================================== ================== 53 29 100.0 35 ............................. CTCCAGCCTGAACAAAATCGCACCATCGCTATTAT 117 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 178 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 239 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 300 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 361 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 422 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 483 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 544 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 605 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 666 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 727 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= =================================== ================== 12 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCGCCAGCGGAGATAAACCGCGCCGCCAGCTGGAAAAATGCCGCCTGTTAATG # Right flank : GGAT # 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 [35.0-3.3]%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 1 214-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQI01000013.1 Salmonella enterica strain CVM 43765 43765_contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 213 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 151 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 90 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 4 29 100.0 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : G # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 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 : 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], //