Array 1 58-1854 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXF01000018.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N38861 N38861_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 58 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 119 29 100.0 32 ............................. CTCCAGCCACATTGCGGCGCGACCGCTTTTAA 180 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 241 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 302 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 363 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 424 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 485 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 546 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 607 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 668 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 729 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 790 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 851 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 912 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 973 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 1034 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1095 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1156 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1217 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 1278 29 100.0 32 ............................. CCAGCTTACACTATTTACGACGTTATTGAGCA 1339 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1400 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1461 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1522 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1583 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1644 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1705 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1766 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1827 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 30 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGAACTTAACTCCAGCATTCTGGCAATTGTTGCGG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [41.7-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 18536-20275 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXF01000018.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N38861 N38861_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 18536 29 100.0 32 ............................. CGACGCTTCCATCGTCTGGCATTCCTGTTCGT 18597 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 18658 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 18719 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 18780 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 18841 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 18902 29 100.0 32 ............................. CATATGATTGACGACAATGAATTTTTTTTCAA 18963 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 19024 29 100.0 32 ............................. ACGGCATTATCACGGCTATTTCTCTGGAAATG 19085 29 100.0 32 ............................. GACAGGACTTACGACCGGCTGGACTACGCATC 19146 29 100.0 32 ............................. CCACAGCCGCCGCGACAATAAATTAACTCACT 19207 29 100.0 32 ............................. GCTGAGATAATTGCCGATCATCTTGAAGACAT 19268 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 19329 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 19390 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 19451 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 19512 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 19573 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 19635 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 19697 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 19758 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 19819 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 19880 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 19941 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 20002 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 20063 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 20124 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 20185 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 20246 29 100.0 0 ............................. | A [20273] ========== ====== ====== ====== ============================= ================================= ================== 29 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-50.0]%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], //