Array 1 164803-162960 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIW01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068037 CFSAN068037_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 164802 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 164741 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 164680 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 164619 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 164558 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 164497 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 164436 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 164374 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 164313 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 164252 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 164191 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 164130 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 164069 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 164008 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 163947 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 163886 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 163825 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 163764 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 163703 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 163641 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 163538 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 163477 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 163416 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 163355 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 163294 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 163233 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 163172 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 163111 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 163050 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162989 29 96.6 0 A............................ | A [162962] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.08, 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 [3-1] 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 2 181877-180934 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIW01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068037 CFSAN068037_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 181876 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 181815 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 181754 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 181693 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 181632 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 181571 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 181510 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 181449 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 181388 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 181327 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 181266 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 181205 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 181144 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 181083 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 181022 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 180961 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //