Array 1 88330-89945 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPF01000007.1 Salmonella enterica subsp. enterica serovar Infantis strain 139 NODE_7_length_136013_cov_2.4746, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88330 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 88392 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 88453 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 88514 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 88575 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 88636 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 88697 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 88758 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 88819 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 88880 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 88941 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 89002 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 89063 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 89124 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 89185 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 89246 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 89307 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 89368 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 89430 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 89491 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 89552 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 89613 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 89674 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 89735 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 89796 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 89857 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 89918 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 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 106228-108125 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPF01000007.1 Salmonella enterica subsp. enterica serovar Infantis strain 139 NODE_7_length_136013_cov_2.4746, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 106228 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 106289 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 106350 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 106411 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 106473 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 106534 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 106595 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 106656 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 106717 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 106778 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 106839 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 106900 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 106961 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 107022 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 107083 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 107144 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 107205 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 107266 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 107327 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 107388 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 107446 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 107507 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 107568 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 107629 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 107690 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 107751 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 107812 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 107873 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 107974 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 108035 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 108096 29 93.1 0 A...........T................ | A [108122] ========== ====== ====== ====== ============================= ======================================================================== ================== 31 29 98.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.07, 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 [0-5] 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], //