Array 1 180929-179313 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQX01000004.1 Salmonella enterica subsp. enterica serovar Newport strain NY_FSL S10-1752 NODE_4_length_495659_cov_32.4413_ID_4653, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 180928 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 180867 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 180806 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 180745 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 180684 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 180623 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 180562 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 180501 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 180440 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 180379 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 180318 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 180257 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 180196 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 180135 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 180074 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 180013 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 179952 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 179891 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 179830 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 179769 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 179708 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 179647 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 179586 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 179525 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 179464 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 179403 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 179342 29 100.0 0 ............................. | A [179315] ========== ====== ====== ====== ============================= ================================ ================== 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 198784-197598 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQX01000004.1 Salmonella enterica subsp. enterica serovar Newport strain NY_FSL S10-1752 NODE_4_length_495659_cov_32.4413_ID_4653, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 198783 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 198722 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 198661 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 198600 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 198539 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 198478 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 198417 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 198356 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 198295 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 198234 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 198173 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 198112 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 198051 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 197990 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 197929 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 197868 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 197807 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 197746 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 197685 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 197625 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], //