Array 1 1369-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHA01000033.1 Salmonella enterica strain BCW_5896 NODE_33_length_41828_cov_6.45097, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1368 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1307 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1246 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 1185 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 1124 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 1063 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 1002 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 941 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 880 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 819 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 758 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 697 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 636 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 575 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 514 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 453 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 392 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 331 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 270 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 209 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 148 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 87 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 26 26 89.7 0 ..........................--- | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : A # 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: 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 [2-0] 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 [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 14-226 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHA01000484.1 Salmonella enterica strain BCW_5896 NODE_484_length_239_cov_0.342105, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 14 29 100.0 33 ............................. AGCCGTGACGCGGTTCGCACTGAGTTAGCCTGG 76 29 100.0 32 ............................. ACGTGCTCAACGAGTATCTGGTGATCCCGTTC 137 29 100.0 32 ............................. GTTCTTCGCGTTTTGTATCGTTGGCGGTTGTT 198 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 4 29 100.0 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGGTCACGACCAG # Right flank : CGTGGGGGCGGCT # 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: 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: NA [8.3-3.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 222626-221455 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHA01000002.1 Salmonella enterica strain BCW_5896 NODE_2_length_239629_cov_6.90098, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 222625 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 222564 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 222503 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 222442 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 222381 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 222320 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 222259 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 222198 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 222136 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 222033 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGGTACCTTT 221972 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 221911 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 221850 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 221789 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 221728 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 221667 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 221606 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 221545 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 221484 29 96.6 0 A............................ | A [221457] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.14, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 2 239580-238758 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHA01000002.1 Salmonella enterica strain BCW_5896 NODE_2_length_239629_cov_6.90098, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 239579 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 239518 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 239457 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 239396 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 239335 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 239273 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 239212 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 239151 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 239090 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 239029 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 238968 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 238907 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 238846 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 238785 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [6-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-41.7]%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], //