Array 1 221928-220312 **** Predicted by CRISPRDetect 2.4 *** >NZ_NABD01000063.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3268_R1 NODE_4_length_290945_cov_0.905854_ID_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 221927 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 221866 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 221805 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 221744 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 221683 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 221622 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 221561 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 221500 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 221439 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 221378 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 221317 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 221256 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 221195 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 221134 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 221073 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 221012 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 220951 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 220890 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 220829 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 220768 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 220707 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 220646 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 220585 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 220524 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 220463 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 220402 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 220341 29 100.0 0 ............................. | A [220314] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%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 239783-238597 **** Predicted by CRISPRDetect 2.4 *** >NZ_NABD01000063.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3268_R1 NODE_4_length_290945_cov_0.905854_ID_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 239782 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 239721 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 239660 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 239599 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 239538 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 239477 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 239416 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 239355 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGATT 239294 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 239233 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 239172 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 239111 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 239050 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 238989 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 238928 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 238867 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 238806 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 238745 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 238684 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 238624 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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], //