Array 1 44873-46366 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABEXX010000064.1 Salmonella enterica subsp. enterica serovar Infantis strain F4 NODE_39_length_52630_cov_23.371682, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44873 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 44935 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 44996 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 45057 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 45118 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 45179 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 45240 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 45301 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 45362 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 45423 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 45484 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 45545 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 45606 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 45667 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 45728 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 45789 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 45850 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 45911 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 45973 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 46034 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 46095 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 46156 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 46217 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 46278 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 46339 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 1 149961-148063 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABEXX010000005.1 Salmonella enterica subsp. enterica serovar Infantis strain F4 NODE_5_length_160044_cov_24.079441, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 149960 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 149899 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 149838 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 149777 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 149715 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 149654 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 149593 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 149532 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 149471 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 149410 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 149349 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 149288 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 149227 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 149166 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 149105 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 149044 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 148983 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 148922 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 148861 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 148800 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 148742 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 148681 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 148620 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 148559 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 148498 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 148437 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 148376 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 148315 29 100.0 11 ............................. CGGCCAGCCAT Deletion [148276] 148275 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 148214 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 148153 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 148092 29 93.1 0 A...........T................ | A [148065] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 : 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 [11-0] 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], //