Array 1 260873-262366 **** Predicted by CRISPRDetect 2.4 *** >NZ_VSBU01000015.1 Salmonella enterica subsp. enterica serovar Infantis strain VGNKI000013 NODE_3_length_441402_cov_31.343421, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 260873 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 260935 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 260996 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 261057 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 261118 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 261179 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 261240 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 261301 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 261362 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 261423 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 261484 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 261545 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 261606 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 261667 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 261728 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 261789 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 261851 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 261912 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 261973 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 262034 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 262095 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 262156 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 262217 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 262278 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 262339 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 2 278649-280485 **** Predicted by CRISPRDetect 2.4 *** >NZ_VSBU01000015.1 Salmonella enterica subsp. enterica serovar Infantis strain VGNKI000013 NODE_3_length_441402_cov_31.343421, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 278649 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 278710 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 278771 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 278832 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 278894 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 278955 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 279016 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 279077 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 279138 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 279199 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 279260 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 279321 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 279382 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 279443 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 279504 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 279565 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 279626 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 279687 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 279748 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 279806 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 279867 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 279928 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 279989 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 280050 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 280111 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 280172 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 280233 29 100.0 11 ............................. CGGCCAGCCAT Deletion [280273] 280273 29 75.9 32 T..AA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 280334 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 280395 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 280456 29 93.1 0 A...........T................ | A [280482] ========== ====== ====== ====== ============================= ================================= ================== 31 29 97.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-10] 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], //