Array 1 1-1002 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXQY01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_3990 NODE_12_length_124942_cov_4.98375, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 26 89.7 32 ---.......................... AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 59 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 120 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 181 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 242 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 303 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 364 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 425 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 487 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 548 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 609 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 670 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 731 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 792 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 853 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 914 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 975 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 97.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [3-8] 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 2 17135-18611 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXQY01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_3990 NODE_12_length_124942_cov_4.98375, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 17135 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 17196 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 17258 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 17319 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 17380 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 17441 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 17502 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 17563 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 17624 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 17685 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 17746 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 17807 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 17868 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 17930 29 100.0 74 ............................. AAGAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 18033 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 18094 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 18155 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 18216 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 18277 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 18338 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 18399 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 18460 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 18521 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 18582 29 96.6 0 A............................ | A [18608] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-3] 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], // Array 1 679-40 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXQY01000016.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_3990 NODE_16_length_89018_cov_4.19324, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 678 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 617 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 556 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 495 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 434 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 373 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 312 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 251 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 190 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 129 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 68 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GAATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGAGAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [38.3-70.0]%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], //