Array 1 219691-218380 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQD01000003.1 Salmonella enterica subsp. enterica serovar Newport strain NY_FSL S10-1020 NODE_3_length_698813_cov_37.7928_ID_2487, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 219690 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 219629 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 219568 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 219507 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 219446 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 219385 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 219324 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 219263 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 219202 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 219141 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 219080 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 219019 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 218958 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 218897 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 218836 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 218775 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 218714 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 218653 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 218592 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 218531 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 218470 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 218409 29 100.0 0 ............................. | A [218382] ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 237668-236360 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQD01000003.1 Salmonella enterica subsp. enterica serovar Newport strain NY_FSL S10-1020 NODE_3_length_698813_cov_37.7928_ID_2487, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 237667 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 237606 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 237545 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 237484 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 237423 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 237362 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 237301 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 237240 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 237179 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 237118 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 237057 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 236996 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 236935 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 236874 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 236813 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 236752 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 236691 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 236630 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 236569 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 236508 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 236447 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 236387 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 98.6 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], //