Array 1 163511-161613 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEU010000010.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-31 NODE_10_length_164574_cov_4.935475, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 163510 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 163449 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 163388 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 163327 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 163265 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 163204 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 163143 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 163082 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 163021 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162960 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162899 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162838 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 162777 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 162716 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 162655 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 162594 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 162533 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 162472 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 162411 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 162350 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 162292 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 162231 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 162170 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 162109 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 162048 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 161987 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 161926 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161865 29 100.0 11 ............................. CGGCCAGCCAT Deletion [161826] 161825 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 161764 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 161703 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161642 29 93.1 0 A...........T................ | A [161615] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [11-0] 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 1 44935-46550 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHEU010000026.1 Salmonella enterica subsp. enterica serovar Infantis strain SI-31 NODE_26_length_61785_cov_4.878913, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44935 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 44997 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 45058 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 45119 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 45180 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 45241 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 45302 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 45363 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 45424 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 45485 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 45546 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 45607 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 45668 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 45729 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 45790 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 45851 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 45912 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 45973 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 46035 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 46096 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 46157 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 46218 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 46279 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 46340 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 46401 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 46462 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 46523 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], //