Array 1 88333-89456 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSF01000023.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_4379 NODE_23_length_89456_cov_2.53821, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88333 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88394 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88455 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 88516 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 88577 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 88638 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 88699 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 88760 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 88821 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88882 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88943 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 89004 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 89065 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 89126 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 89187 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 89248 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89309 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89370 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89431 26 89.7 0 ..........................--- | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : | # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-0.0]%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 107843-106366 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSF01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_4379 NODE_17_length_108875_cov_2.61914, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107842 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107781 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107719 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107658 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107597 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107536 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107475 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107414 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107353 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107292 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107231 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107170 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107109 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 107047 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106944 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106883 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106822 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106761 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106700 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106639 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106578 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106517 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106456 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106395 29 96.6 0 A............................ | A [106368] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 1 42-924 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSF01000046.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_4379 NODE_46_length_16032_cov_2.60539, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 42 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 103 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 164 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 225 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 286 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 347 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 409 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 470 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 531 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 592 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 653 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 714 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 775 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 836 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 897 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 15 29 97.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGATG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 : 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 [2-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [40.0-63.3]%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], //