Array 1 161546-160132 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDNL01000002.1 Salmonella enterica subsp. enterica serovar Rubislaw strain 188 NODE_2_length_373004_cov_11.4345, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 161545 29 100.0 32 ............................. GATGTGTCAGGAACGATGCAAATTGCGGACAG 161484 29 100.0 32 ............................. AGCTATATGTCTGACCGTGACGGGTCGGTTCG 161423 29 100.0 32 ............................. CGTCGCTTGCGTCCGGTCAGCGTGCGGGCGGT 161362 29 100.0 32 ............................. ATCGCGCCCTCATCTCCCCAGATTTTTGATAC 161301 29 100.0 32 ............................. TATCACTACCGGATCGGATCGGCTGAATTGAA 161240 29 100.0 32 ............................. AATATATAGTTATATATATGTTAAATAACCTA 161179 29 100.0 32 ............................. AACAGTGCAACCAGAAAGTATTAAAAAACCAA 161118 29 100.0 32 ............................. GCGATCACCTGTCGCTGGCGGAAATCAATAGC 161057 29 100.0 32 ............................. GTTTCCCCCTTGAGTAGTTCCTTTCGATAATT 160996 29 96.6 32 ................A............ CAAAACTGGATTAATGAGGACGGGTACGAAAT 160935 29 100.0 32 ............................. TTTACCCCCTGTTTACTGCAATAGCGCGGATA 160874 29 100.0 32 ............................. GTCGCGGGTCGTGTGTCTGTTTTATTTGACGT 160813 29 100.0 32 ............................. CCATCTTTTTCGCGCCTTGTTGGTCAGGCAAT 160752 29 96.6 32 ....A........................ CACATCTCCAAACTGGAACGCGCCAACGCTGC 160691 29 100.0 32 ............................. GAAAACTCTAAATCCAGCACGATTCGTTGTTT 160630 29 100.0 32 ............................. CTATTAATGCAGATTCTAAAAGAATTGCAGAA 160569 29 86.2 4 ...............C.....GA....G. CTTG TTCCTCAA [160545] Deletion [160537] 160528 29 100.0 32 ............................. GCCAGCGCTAGCGCGCTCGCGAAATGGGAGCC 160467 29 100.0 32 ............................. GCTATTGTGATGCAGTCAATGCAATGGGGTAT 160406 29 100.0 32 ............................. GCCATACCCACAACCTCCAGACGCCCAAGCCC 160345 29 100.0 32 ............................. CAGGAGGAATCAACTCTCGACCCTGCTGAACC 160284 29 100.0 32 ............................. TTTACGGGCGCACAGCGAAAACTACCGAGGAG 160223 29 100.0 33 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAAA 160161 29 86.2 0 TAA.........T................ | A [160134] ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.6 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCTTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGTCGCCTTGCCGTCTGGTTACTGGAGATTCGGGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAGATGATTTGGCAACAAATCACGGAGCTTGGCGGTTGCGGGAATGCCGTCATGGCCTGGGCGACCAACACGGAATCAGGATTTGAGTTCCAGACATGGGGTGAAAACCGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTGGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTTGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.10, 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 [17-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-68.3]%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 178450-177690 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDNL01000002.1 Salmonella enterica subsp. enterica serovar Rubislaw strain 188 NODE_2_length_373004_cov_11.4345, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 178449 29 100.0 32 ............................. CCGTCCACGGTACAACAATAAACGCCGGGAAT 178388 29 100.0 32 ............................. ACTGACAAACAGCGTGAGCATATCGCGCAACT 178327 29 100.0 32 ............................. TCTTCAGAAATGATGAGTTTTTCCAGTCCGTC 178266 29 100.0 32 ............................. TGTCGGACAGTATCTGGTTGGCTATGGGGGGC 178205 29 100.0 32 ............................. GAATTAAACGTTACTGGCATGATACCGTTCGG 178144 29 100.0 32 ............................. GTTTCGCAGGTACGGTTAGTCCGGCCAATTCA 178083 29 100.0 32 ............................. GCGACGGCGTTTATCAGTGCGAACAGGACCAG 178022 29 100.0 32 ............................. TTTTAGACATGGCAAACGCCGACAGGATGAGC 177961 29 100.0 32 ............................. AATCAGAAACAAACAAGACTTACTGGATGTTG 177900 29 96.6 32 .G........................... GGCGTCGAACCAACAGTGCCCGGGCAGGATAC 177839 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 177778 29 96.6 32 ............T................ TACCAACAATTCAGCGTTACGCCAACGGTAAC 177717 28 89.7 0 ................G.......G-... | ========== ====== ====== ====== ============================= ================================ ================== 13 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCCCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATCGCCTGATGCATTACTAATCCTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATTATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTATAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGGGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTTGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [65.0-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //