Array 1 88338-89343 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEC010000019.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-05 NODE_19_length_89383_cov_4.407468, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88338 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 88400 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 88461 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 88522 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 88583 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 88644 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 88705 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 88766 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 88827 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 88888 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 88949 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 89010 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 89071 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 89132 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 89193 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 89254 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 89315 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 17 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GGATCATCAATGTGGGAAGTTATCACAACGGAGTGTTCCC # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1081-2978 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEC010000003.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-05 NODE_3_length_219727_cov_4.558784, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1081 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 1142 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 1203 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 1264 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 1326 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 1387 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 1448 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 1509 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 1570 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 1631 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 1692 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 1753 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 1814 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 1875 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 1936 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 1997 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 2058 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 2119 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 2180 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 2241 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 2299 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 2360 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 2421 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 2482 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 2543 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 2604 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 2665 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 2726 29 100.0 11 ............................. CGGCCAGCCAT Deletion [2766] 2766 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 2827 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 2888 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2949 29 93.1 0 A...........T................ | A [2975] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 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 [0-11] 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], // Array 1 15736-15220 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEC010000058.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-05 NODE_58_length_15756_cov_4.361188, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 15735 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 15674 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 15613 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 15552 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 15491 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 15430 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 15369 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 15308 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 15247 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCTGGAATGCAAGGATTTTG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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: F [63.3-21.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //