Array 1 165661-164197 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVIX01000127.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PPRJ_27 Contig127, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 165660 29 93.1 32 TA........................... TTACGTGTTTATTCATCTGTTGCATTAGATTC 165599 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 165538 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 165477 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 165416 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 165355 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAGCA 165294 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 165233 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 165172 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 165111 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 165050 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 164989 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 164928 29 100.0 28 ............................. TGAGCAACGACAGTAAATAATTTTTCGT 164871 29 93.1 33 .CT.......................... CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 164809 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGCA 164748 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 164645 29 100.0 29 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCT 164587 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 164526 29 96.6 33 .................T........... AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 164464 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAGCA 164403 29 100.0 29 ............................. GTCGTTCATCAGGCACTACCGGCACTTTC 164345 29 93.1 29 TG........................... GCACTATTTCGAATGTCTCGACGCCAGAT 164287 29 96.6 32 T............................ AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 164226 29 96.6 0 A............................ | A [164199] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 98.4 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATCGAAGAGGTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:-0.11, 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-2] 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 2 183367-181783 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVIX01000127.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PPRJ_27 Contig127, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 183366 29 100.0 25 ............................. GCGAGGTCAATAAAAAATGGTGTGG Deletion [183313] 183312 29 96.6 32 C............................ TTTGCCGATCCCCTTCCAGACCACCCTTTACA 183251 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 183190 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 183129 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 183068 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 183007 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 182946 29 93.1 27 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTA 182890 29 96.6 29 T............................ CTCCAGCGCTCGAATTTATTTGAGGCCAC 182832 29 96.6 32 C............................ CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 182771 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 182710 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 182649 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 182588 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 182527 29 96.6 26 .............T............... ATGCCGGAACGCTGATGGCGTTTGAC 182472 29 96.6 26 A............................ TTGATCGAGAGTGCGAAGAGGCAGAA A [182469] 182416 29 93.1 32 CG........................... CAGGTTATGCGCAAAAATTAATTCATATTATA 182355 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAGCA 182294 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 182233 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 182172 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 182111 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 182050 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 181988 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 181927 29 96.6 27 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGA 181871 29 93.1 32 A.A.......................... CGTTCATCGGCAGCGTCACGCAATATGAAGAT 181810 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 97.3 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:-0.03, 8:1, 9:0.81, # 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [9-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%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], //