Array 1 162816-160918 **** Predicted by CRISPRDetect 2.4 *** >NZ_VSBV01000020.1 Salmonella enterica subsp. enterica serovar Infantis strain VGNKI000012 NODE_2_length_470640_cov_31.509574, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 162815 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 162754 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 162693 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 162632 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 162570 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 162509 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 162448 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 162387 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 162326 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162265 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162204 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162143 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 162082 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 162021 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 161960 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 161899 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 161838 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161777 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 161716 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 161655 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 161597 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 161536 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 161475 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 161414 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 161353 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 161292 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 161231 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161170 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 161069 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 161008 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160947 29 93.1 0 A...........T................ | A [160920] ========== ====== ====== ====== ============================= ======================================================================== ================== 31 29 98.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [3-0] 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], // Array 2 180592-179098 **** Predicted by CRISPRDetect 2.4 *** >NZ_VSBV01000020.1 Salmonella enterica subsp. enterica serovar Infantis strain VGNKI000012 NODE_2_length_470640_cov_31.509574, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180591 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 180529 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 180468 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 180407 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 180346 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 180285 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 180224 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 180163 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 180102 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 180041 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 179980 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 179919 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 179858 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 179797 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 179736 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 179675 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 179613 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 179552 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 179491 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 179430 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 179369 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 179308 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 179247 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 179186 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 179125 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 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], //