Array 1 44876-46428 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAJ01000081.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_3278_R1 NODE_6_length_169337_cov_1.10953_ID_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 44876 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 44937 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 44998 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 45059 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 45120 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 45181 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 45242 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 45303 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 45364 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 45425 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 45486 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 45547 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 45608 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45669 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45730 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 45791 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 45852 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 45913 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 45974 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 46035 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 46096 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 46157 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 46218 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 46279 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 46340 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 46401 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 62561-63200 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAJ01000081.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_3278_R1 NODE_6_length_169337_cov_1.10953_ID_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 62561 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 62622 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 62683 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 62744 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 62805 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 62866 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 62927 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 62988 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 63049 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 63110 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 63171 29 96.6 0 A............................ | A [63197] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //