Array 1 7721-6105 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRF01000079.1 Salmonella enterica subsp. enterica serovar Infantis strain BCW_3983 NODE_79_length_11344_cov_3.9906, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 7720 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 7658 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 7597 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 7536 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 7475 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 7414 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 7353 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 7292 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 7231 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 7170 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 7109 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 7048 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 6987 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 6926 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 6865 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 6804 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 6743 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 6682 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 6620 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 6559 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 6498 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 6437 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 6376 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 6315 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 6254 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 6193 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 6132 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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 85989-84580 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRF01000014.1 Salmonella enterica subsp. enterica serovar Infantis strain BCW_3983 NODE_14_length_86037_cov_5.96309, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 85988 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 85927 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 85866 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 85805 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 85744 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 85683 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 85622 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 85561 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 85500 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 85439 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 85378 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 85317 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 85259 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 85198 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 85137 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 85076 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 85015 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 84954 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 84893 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 84832 29 100.0 11 ............................. CGGCCAGCCAT Deletion [84793] 84792 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 84731 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 84670 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 84609 29 93.1 0 A...........T................ | A [84582] ========== ====== ====== ====== ============================= ================================ ================== 24 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCTACCAGGCCCGTTTGTCTCAACCATGACCA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.81 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.07, 8:1, 9:0.78, # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [11-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-35.0]%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], // Array 1 166-15 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRF01000084.1 Salmonella enterica subsp. enterica serovar Infantis strain BCW_3983 NODE_84_length_10243_cov_4.84522, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 165 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 104 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 43 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTGACTTTAATGGC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [15.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //