Array 1 3205085-3202122 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039279.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFIAFB20170119 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3205084 29 100.0 32 ............................. TGAATACCATTTTCCCGACAGAATAATTTAAA 3205023 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 3204962 29 100.0 32 ............................. ATCTAGGAATTAATAACAATCAGTTACTATCA 3204901 29 100.0 32 ............................. GTTGCAAAGATATCGACGTTCAGGAGCCTGTC 3204840 29 100.0 32 ............................. TATTACCCTTTCAGAATCTTTTTTGGATTGCT 3204779 29 100.0 32 ............................. CTATCAACTGTAATACCTTTACTTTCGAGGAA 3204718 29 100.0 33 ............................. GGCAAAGACGCGATCCTATCAACACTGCCCGCC 3204656 29 100.0 33 ............................. TTACCCCGGCTCAAAAAGACATTCATAACGCGC 3204594 29 100.0 32 ............................. CTCGCTAACTCCCTTAAAAGGGATATAATAAA 3204533 29 100.0 32 ............................. TACTGGACATGAATAAGCGGTTAGATGAGGAA 3204472 29 100.0 32 ............................. GTGATATTATTAACCTGTGAACTATCTACCTA 3204411 29 100.0 32 ............................. GCCACCAGCACGACAAACAGCAACGCACGATT 3204350 29 100.0 32 ............................. AGACCGCGAGCAGATAACGCAGCTGGAGGCAC 3204289 29 100.0 32 ............................. GGGACGAGAAACGCCACTTTTATACCAAAAGG 3204228 29 100.0 32 ............................. GAATTTAACCATCGTATTTGCAGTTATTGTTT 3204167 29 100.0 33 ............................. GCAACTTTTCAGCCTGTTTATTAACTGCTCTAC 3204105 29 100.0 32 ............................. CATGGCGGCGCGGCTGGCATCTTCATTCTCGC 3204044 29 100.0 32 ............................. TTGACATTGTTGCTGATGGCGCAGTTATGCCC 3203983 29 100.0 32 ............................. GTTATCAGATCGTTCAGCATTGGCGCTTTGCC 3203922 29 100.0 32 ............................. CTCTGATTCAGTCCAGTAGAGATGCCATGTGT 3203861 29 100.0 32 ............................. ACACCGTACTGAGTCTGAATGATGTGATTGGC 3203800 29 100.0 32 ............................. GTGGTCCTCAAGTGAGTCTTTGGAAAAACCCA 3203739 29 100.0 32 ............................. CCAGTGCTCACTTGCTTCTACCCGCCCCGATC 3203678 29 100.0 33 ............................. CTGGCACGCGTCTGCGATTTGCCGTAGTTCTAC 3203616 29 100.0 32 ............................. GCACGTTTGCTGGGGCTGGAAGAAGGTGTTCA 3203555 29 100.0 32 ............................. GATACCACCGAGCCTGAAGTGGCAAAAAGACA 3203494 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 3203433 29 100.0 32 ............................. AGCTTATTCAGATGGGGCATTTATCGCCTTAT 3203372 29 100.0 32 ............................. ATAACAGCACTGGCTTCGTTACTTTTGCCAGC 3203311 29 100.0 32 ............................. TGATCTGGCTGAGTTCTCCAGTGACGACAAAA 3203250 29 100.0 32 ............................. AAAAGAGCCAATACTCCCCAGTAAACCGCCAG 3203189 29 100.0 32 ............................. TCGATCCTGACAGCCTGATGGCCCGCCGCGAA 3203128 29 100.0 32 ............................. GGGAAAACCCAAAAAACGCGTTAAATCTTTTG 3203067 29 100.0 32 ............................. AATTTAACGGCGATCAGGTTCGCATGCTGAAT 3203006 29 100.0 32 ............................. ATTTACGTTTATTCAGTTCAGGCTAACGGCTC 3202945 29 100.0 32 ............................. CAGATTGACATTAACGCCACGATAATCGAACG 3202884 29 100.0 32 ............................. AAAGCGCAGATCAGGCTAACTCAATCAAATCG 3202823 29 100.0 32 ............................. AATTTGGATCGCCCTGAGTTTAGGCGCATGGT 3202762 29 100.0 32 ............................. TTGAATGTCCAGAGTGTGGCAATCACTTTACA 3202701 29 100.0 32 ............................. CGTGTTCACCGCTGCGCCCGGTTATATCCCGT 3202640 29 100.0 32 ............................. CGATATTGACGATGTATGACCGGAAAACCTCG 3202579 29 100.0 32 ............................. GTGGCAAACGAACAGGGATTTGTCGGCAGTTA 3202518 29 100.0 32 ............................. CCAGCCCTCCGGGGCTGGTTACTCGCAGAGCA 3202457 29 100.0 32 ............................. CCTGCTGGCTGATGTTAAACGTAAAACCAGTG 3202396 29 100.0 32 ............................. CATTGCTGCCAGCCAGAAGCGCCCTTCACTCA 3202335 29 100.0 32 ............................. GCTACGGTAAACGTGAATGTGCGTATTGACGC 3202274 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 3202212 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3202151 29 96.6 0 A............................ | A [3202124] ========== ====== ====== ====== ============================= ================================= ================== 49 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 3222761-3221756 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039279.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFIAFB20170119 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3222760 29 100.0 32 ............................. CGAGCCCAAATAAGCCGCCAGGCGTCGCGAGA 3222699 29 100.0 32 ............................. TTGAATGCCCAGAGTGTGGCAATCACTTTACA 3222638 29 100.0 32 ............................. GGGGCGTCTGAAATTGAGGCTCTTTACGCTCG 3222577 29 100.0 32 ............................. AGGAAAATCATTTTGCAATGATGAGCTATAAC 3222516 29 100.0 32 ............................. GTTAGGGAAGGTACTCCTGGCTAATTCTTTTG 3222455 29 100.0 32 ............................. AACTTAGCACCCTAATTAGCTGATTGATGCGA 3222394 29 100.0 32 ............................. CCTTCTCCCGGTTAGCCTGGGTTTTGCTGCGC 3222333 29 100.0 32 ............................. AAACCCCGGAAATGCAGGAGCGCGTTAAGGCG 3222272 29 100.0 32 ............................. GGCCGCGTATTCTTCATCAGTGATGTACCGTT 3222211 29 100.0 32 ............................. GGCCGCGTATTCTTCATCAGTGATGTACCGTT 3222150 29 100.0 33 ............................. GGGATCGGCAAACTTGCTTTAACGCCGGACAAC 3222088 29 100.0 32 ............................. CATTGAATCATATGGGACTCCGCACGTCGCGC 3222027 29 100.0 32 ............................. CAGGAGGCGGATCAATGAGCTACATCGACAAA 3221966 29 96.6 32 ............................A TAAATCGCTTTACCGAAGCGTCGGGTTAACTC 3221905 29 100.0 32 ............................. CGTCCCGGTAAATCTTTCTACGCGCCTGATTG 3221844 29 100.0 32 ............................. TCCGGGAGCGTGATTACCTGCCCAGCGGGAAA 3221783 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATCGCCTGATGCATTACTAATCCTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-71.7]%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], //