Array 1 248519-246743 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABI01000023.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N42459 N42459_R1_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 248518 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 248457 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 248396 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 248335 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 248273 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 248212 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 248151 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 248090 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 248029 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 247968 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 247907 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 247846 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 247785 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 247724 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 247663 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 247602 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 247541 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 247480 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 247422 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 247361 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 247300 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 247239 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 247178 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 247117 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 247056 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 246995 29 100.0 11 ............................. CGGCCAGCCAT Deletion [246956] 246955 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 246894 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 246833 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 246772 29 93.1 0 A...........T................ | A [246745] ========== ====== ====== ====== ============================= ================================= ================== 30 29 97.6 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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 2 266112-264801 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABI01000023.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N42459 N42459_R1_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 266111 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 266049 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 265988 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 265927 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 265866 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 265805 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 265744 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 265683 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 265622 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 265561 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 265500 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 265439 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 265378 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 265317 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 265256 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 265195 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 265133 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 265072 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 265011 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 264950 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 264889 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 264828 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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], //