Array 1 4080-4414 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHER010000381.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-26 NODE_381_length_4468_cov_2.762727, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4080 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 4142 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 4203 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 4264 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 4325 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 4386 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GCTGAAATATTGCTATTTCCGAAGGGGCTGATGTGTTCCCCGCGCCAGCGGGGA # 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 [70.0-38.3]%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 31-1279 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHER010000477.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-26 NODE_477_length_2726_cov_2.266641, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 31 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 92 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 153 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 214 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 275 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 336 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 397 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 458 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 519 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 580 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 641 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 702 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 764 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 825 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 886 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 947 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 1008 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 1069 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 1130 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 1191 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 1252 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGCAATATTGCTATTTCCGAAGGGGCTGATG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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: R [28.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 3055-4952 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHER010000158.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-26 NODE_158_length_10727_cov_2.651604, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3055 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 3116 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 3177 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 3238 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 3300 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 3361 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 3422 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 3483 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 3544 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 3605 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 3666 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 3727 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 3788 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 3849 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 3910 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 3971 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 4032 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 4093 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 4154 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 4215 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 4273 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 4334 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 4395 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 4456 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 4517 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 4578 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 4639 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 4700 29 100.0 11 ............................. CGGCCAGCCAT Deletion [4740] 4740 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 4801 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 4862 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 4923 29 93.1 0 A...........T................ | A [4949] ========== ====== ====== ====== ============================= ================================= ================== 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], //