Array 1 356-21 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYLP01000278.1 Salmonella enterica strain BCW_5049 NODE_278_length_471_cov_1.3875, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 355 29 96.6 32 ............................A GCTGTAAAATCAGGGGAAATCACCGTCTACCC 294 29 100.0 32 ............................. CTAAACCAATTACTCCATTCTGGCGCTTGGCC 233 29 100.0 32 ............................. CAAAATACCATCGGGGAATTGGTAGACAGTTT 172 29 100.0 32 ............................. AATCGGCGGTATTTTGAATTAGCGTTCCACTT 111 29 100.0 32 ............................. TTTATGGACGAGTTCTGGAAATGGTTAGCTGA 50 29 96.6 0 ............T................ | A [23] ========== ====== ====== ====== ============================= ================================ ================== 6 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCCCATAAAAAGTCGCTGGCTTCCCGATCGTAACCGAGATCGTAACGTAATAAATTTTG # Right flank : GTTTCACCAGCATATCAAGAC # 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: 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [20.0-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 51143-51781 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYLP01000011.1 Salmonella enterica strain BCW_5049 NODE_11_length_178572_cov_6.43534, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 51143 29 100.0 32 ............................. AGCACCTCGGGGACGATATTATTGGGACTATA 51204 29 96.6 32 A............................ GCGGTTTTATTCGGCAGGGCATTGAATTTAAT 51265 29 100.0 32 ............................. CCTGATCGCCAATATCTGAATATGATTTATTC 51326 29 100.0 33 ............................. TGCCGCGTGTCCGCCCCGTTGTCCAGCATCTGC 51388 29 100.0 32 ............................. AGTTGAGTAAAAAATCATGACATCACGCTACA 51449 29 100.0 32 ............................. CCGCGCTTATTGATCAGGAGAAAATAAAAAAA 51510 29 100.0 32 ............................. GGTCCGGTGTGGTCTGCCGAACCCGGCACCAG 51571 29 96.6 32 .................G........... ATGATGCGCAATTGCCGCCGTCGTCGTTGAGT 51632 29 96.6 32 .................G........... GAAGAGGCGAAGTCAGGGCGAGAGAGGCTTTG 51693 29 96.6 32 .................G........... TGTCGGTGTAAGTTGCTAAATACTCAGGTAAA 51754 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 11 29 97.2 32 GTGTTCCCCGCGCCAGCCGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAACGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAATTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATTCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : GTGTTCCCCGCGCCAGCCGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-7.30,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 68533-70697 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYLP01000011.1 Salmonella enterica strain BCW_5049 NODE_11_length_178572_cov_6.43534, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 68533 29 100.0 32 ............................. GGAACTGGTCAGCGGCGAAACAAAATCCGTGA 68594 29 100.0 32 ............................. CTATCGGCAATTTTCATCAGGCCCATTGCAAT 68655 29 100.0 32 ............................. GCGTCCAGCATTGCGCTAATAAAACTGGCCTG 68716 29 100.0 32 ............................. CCGGTCATAACAAGTGGCTTCGACGACCCTTT 68777 29 100.0 32 ............................. ATTGACGATTTTTCGTTAATAACGTCGTTATC 68838 29 100.0 32 ............................. TGTCGGTGTAAGTTGCTAAATACTCAGGTAAA 68899 29 100.0 32 ............................. CCCTCGCGCAAAAAGCGGTTGCTGTCGTTGAC 68960 29 100.0 32 ............................. AATCTGCCAACAGGCGCTCTGTGTATCGGCGC 69021 29 100.0 32 ............................. CTCCCTCTCCGCGTTTTTGCGTCGGCTGGGGA 69082 29 96.6 32 ............................T TTACGAGTTGGACGGTGAGTTTTATCACCGCA 69143 29 100.0 32 ............................. ATCCGCAGCATTACGTTGACGAACAAGCGAGA 69204 29 100.0 32 ............................. TTTCCATTTTAACACCTGCTTAATTAAGAGAT 69265 29 100.0 32 ............................. AGATTTTGCAGTGAACCACGACCGATGACGGA 69326 29 100.0 32 ............................. GCGTGTAAAATCACAGGCCGTCAGCCTAACGA 69387 29 100.0 32 ............................. CTGTCGCAAAAGCGGGTCTTATGTCTGCGGGT 69448 29 100.0 32 ............................. CCCCTGAGCGTTCAACGGCAAATAGCGGACAC 69509 29 100.0 32 ............................. TATACAGGGCGTTACCCCCAATCGAGCAGCGC 69570 29 100.0 32 ............................. GGGATCGGCGTCTGTGAAATTCTGTGGAATAC 69631 29 96.6 32 ............................A ATATTTAAAGATATGCAGAGAATTCTTTTGGC 69692 29 100.0 32 ............................. TGCGAATTTACCGTCGGCAAAACCGCGCTGAT 69753 29 100.0 32 ............................. CCAATATTCTCCTGATTATTCCGTTTATTTCC 69814 29 100.0 32 ............................. GGTTCACTCAGTGGAGCCTTCCACCTGATAAG 69875 29 100.0 32 ............................. ACGCGAACGCGGATATAAACTCAACAGCGCTC 69936 29 96.6 32 .............T............... AATTCCGTTACTATCTCGACGACCCGCGCGCG 69997 29 100.0 32 ............................. GGACGAAAACGACGTCCGTTGCGTGAAAACCC 70058 29 100.0 32 ............................. AAAGCGAACGATGCGCTGAAAACGACAAAACA 70119 29 100.0 32 ............................. CAGTGAAATAAAACCAACGCACTGGGTATCCC 70180 29 96.6 32 .......T..................... CCCACCGCCCAGCCCGGATATAGTGAACTGGT 70241 29 100.0 32 ............................. AATAACTCCGTCGAGGTTGAGCGCGTTCTGCA 70302 29 100.0 32 ............................. ACTGGTATATCACCAATCATGAGCAATTCTGG 70363 29 100.0 32 ............................. ATTTGCCGCTTCACTAAACCGCGCGCCGGTGC 70424 29 100.0 32 ............................. GTCTGGCCGGATGTGGTCGCGGGTTGGAACAG 70485 29 100.0 32 ............................. TTTATCGAAAATCAATGTTCAACTCATTGTTT 70546 29 96.6 32 ........G.................... CCGGAAAACTATCTCTATCGCAGGCTGGATAT 70607 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 70668 29 96.6 0 ............T................ | A [70695] ========== ====== ====== ====== ============================= ================================ ================== 36 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGACTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGGGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCTGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-46.7]%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 1 226-14 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYLP01000604.1 Salmonella enterica strain BCW_5049 NODE_604_length_261_cov_1.68421, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 225 29 100.0 32 ............................. CTCATCCTTTGTGAGTCGGTTCGCTTTAAGAC 164 29 100.0 32 ............................. AGAGGGAATAATTAGCAATTTGTGCTCATAAT 103 29 100.0 32 ............................. GTGGTGGCCACGTTGGTTTTGTTGTTGGTCAG 42 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : TAAAAAATAGTTTATAAACAATGATATACGTTTAG # Right flank : GATACGTTACGTAT # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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: R [15.0-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.14 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //