Array 1 44819-46434 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAOV01000001.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-153-13 153_13_contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44819 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 44881 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 44942 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 45003 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 45064 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 45125 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 45186 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 45247 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 45308 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 45369 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 45430 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 45491 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 45552 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 45613 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 45674 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 45735 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 45796 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 45857 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 45919 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 45980 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 46041 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 46102 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 46163 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 46224 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 46285 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 46346 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 46407 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 62717-64614 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAOV01000001.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-153-13 153_13_contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 62717 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 62778 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 62839 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 62900 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 62962 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 63023 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 63084 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 63145 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 63206 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 63267 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 63328 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 63389 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 63450 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 63511 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 63572 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 63633 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 63694 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 63755 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 63816 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 63877 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 63935 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 63996 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 64057 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 64118 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 64179 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 64240 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 64301 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 64362 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 64463 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 64524 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 64585 29 93.1 0 A...........T................ | A [64611] ========== ====== ====== ====== ============================= ======================================================================== ================== 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], //