Array 1 1696-3597 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROK01000099.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN002 contig12_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1696 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 1757 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 1818 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 1879 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 1940 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 2001 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 2062 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 2123 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 2184 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 2245 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 2306 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 2367 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 2428 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 2489 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 2550 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 2611 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 2672 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 2733 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 2794 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 2855 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 2916 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 2977 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 3038 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 3099 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 3160 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 3221 29 100.0 74 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCATGTGTTCCCCGCGCCAGTTCTTCAGCTGGCAACGACAGAATGC 3324 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 3385 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 3446 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 3507 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 3568 29 100.0 0 ............................. | A [3595] ========== ====== ====== ====== ============================= ========================================================================== ================== 31 29 99.8 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.08, 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 [58.3-48.3]%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], // Array 1 4089-5043 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROK01000098.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN002 contig12_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ============================================= ================== 4089 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 4150 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 4211 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 4272 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 4333 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 4394 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 4455 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 4516 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 4577 29 79.3 45 .....................CGCGC.A. CGGGGATAAACCGAACTAACGTCTATAGCTAAATGTAGAGAAAAC 4651 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 4712 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 4773 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 4834 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 4895 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 4956 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 5016 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ============================================= ================== 16 29 97.0 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [0-8] 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], //