Array 1 108001-106218 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMJ01000023.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N51245 N51245_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108000 29 100.0 33 ............................. TCCCCGAGCTTAGTTAGGTTTCGCTGAACGTGC 107938 29 100.0 33 ............................. GTGCGCGTGGAGCGCCTTAATTCAATTACTGAA 107876 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 107815 29 100.0 32 ............................. GCCAGGGGTTCAGGATTTCGGATATTGCTGAC 107754 29 100.0 32 ............................. CGACGCCTCTTTTTTCTGTACCTTTTGCCGGT 107693 29 100.0 32 ............................. CACCTGGCGCCAGAAATATTCATGGTAATCGG 107632 29 96.6 32 ...........A................. TCACGGTGGAATATTGCAGCAAAATCAAAAGA 107571 29 100.0 32 ............................. GGTACTTTCGATACCAATAAGGACCGGATTAC 107510 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 107449 29 100.0 32 ............................. GCGCGGGAACGTGGGATGATGCCAGGACCATC 107388 29 100.0 32 ............................. TGGTCGAGGAGGGGCGGGCGATCACTGAAAAA 107327 29 100.0 32 ............................. TGGCCACAGTCTGGTTGTGTTGTTGGACGACA 107266 29 100.0 33 ............................. ATTTAAACCACATTGAAACGGCTATTTACTGGC 107204 29 100.0 12 ............................. CATTAAAAAAAA Deletion [107164] 107163 29 62.1 32 CAT..G.TATA.GTG.............. TGGTTGTTAATGCTGGCGATATTTTTAGCACA 107102 29 100.0 32 ............................. CAAAAAATTACCCATTGCGAAATCATATTCCC 107041 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 106979 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 106918 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 106857 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 106796 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 106735 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 106674 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 106613 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 106552 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 106491 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCCTCCTGC 106430 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 106369 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 106308 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 106247 29 96.6 0 ............T................ | A [106220] ========== ====== ====== ====== ============================= ================================= ================== 30 29 98.5 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.05, 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 1 1245-57 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMJ01000049.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N51245 N51245_contig_49, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1244 29 100.0 32 ............................. TAAACACATTGACTTTATCGCGATAAGCTATA 1183 29 100.0 32 ............................. ACTGATATAGATTCTATCCTGTCGGCGTCCCA 1122 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 1061 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 1000 29 100.0 32 ............................. GCCGAAGCCATCAAATCAAAAACAAAATTATC 939 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 878 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 817 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 756 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 695 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 634 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 573 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 512 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 451 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 390 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 329 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 268 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 207 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 146 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 85 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 20 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATTAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GGTCACGAGGTCTGACGCGGATGTGATGAGTTAGTGTTCCCCGCGCCAGCGGGGATA # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [36.7-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //