Array 1 461142-462327 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDTT01000003.1 Salmonella enterica subsp. enterica serovar Newport strain 21 NODE_3_length_732857_cov_15.6086, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 461142 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 461203 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 461264 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 461325 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 461386 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 461447 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 461508 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 461569 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 461630 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 461691 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 461752 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 461813 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 461874 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 461935 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 461996 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 462057 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 462118 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 462179 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 462240 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 462300 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 478997-480612 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDTT01000003.1 Salmonella enterica subsp. enterica serovar Newport strain 21 NODE_3_length_732857_cov_15.6086, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 478997 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 479058 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 479119 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 479180 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 479241 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 479302 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 479363 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 479424 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 479485 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 479546 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 479607 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 479668 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 479729 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 479790 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 479851 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 479912 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 479973 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 480034 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 480095 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 480156 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 480217 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 480278 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 480339 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 480400 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 480461 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 480522 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 480583 29 100.0 0 ............................. | A [480610] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //