Array 1 88328-90065 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYQF01000021.1 Salmonella enterica strain BCW_4840 NODE_21_length_90070_cov_2.86551, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88328 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88389 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88450 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 88511 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 88572 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 88633 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 88694 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 88755 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 88816 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 88877 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 88938 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 88999 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 89060 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 89121 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 89182 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 89243 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 89304 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 89365 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89426 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89487 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 89548 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 89609 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 89670 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 89731 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 89792 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 89854 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 89915 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 89976 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 90037 29 93.1 0 A............T............... | ========== ====== ====== ====== ============================= ================================= ================== 29 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGATA # 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-5.0]%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 15-347 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYQF01000017.1 Salmonella enterica strain BCW_4840 NODE_17_length_123845_cov_2.90326, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 15 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 76 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 137 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 198 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 259 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 320 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 95.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTTGCGCGCTTAATA # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.77, 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 [2-6] 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 16480-17284 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYQF01000017.1 Salmonella enterica strain BCW_4840 NODE_17_length_123845_cov_2.90326, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 16480 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 16541 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 16602 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 16663 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 16724 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 16786 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 16889 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 16950 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 17011 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 17072 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 17133 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 17194 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 17255 29 96.6 0 A............................ | A [17281] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 [71.7-48.3]%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], //