Array 1 218351-216392 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHLY01000001.1 Salmonella enterica subsp. enterica serovar Infantis strain RS40 scaffold1_size776664, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 218350 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218289 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218228 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218167 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218105 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218044 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 217983 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 217922 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 217861 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 217800 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 217739 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 217678 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217617 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217556 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217495 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217434 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217373 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217312 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217251 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217190 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217132 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217071 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217010 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 216949 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 216888 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 216827 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 216766 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 216705 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 216604 29 100.0 32 ............................. GGCGATGCGGGCGCATTGTACGCGATGCAGAC 216543 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216482 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216421 29 93.1 0 A...........T................ | A [216394] ========== ====== ====== ====== ============================= ======================================================================== ================== 32 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 236249-234633 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHLY01000001.1 Salmonella enterica subsp. enterica serovar Infantis strain RS40 scaffold1_size776664, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236248 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236186 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236125 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 236064 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236003 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 235942 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 235881 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 235820 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 235759 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 235698 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235637 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235576 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235515 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235454 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235393 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235332 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235271 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235210 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235148 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 235087 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 235026 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 234965 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 234904 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 234843 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 234782 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 234721 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234660 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], //