Array 1 44819-45761 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHJC01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068030 CFSAN068030_contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 44819 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 44880 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 44941 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45002 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 45063 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 45124 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45185 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 45246 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 45307 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 45368 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 45429 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 45490 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 45551 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 45612 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 45673 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 45734 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-6] 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 61893-63741 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHJC01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068030 CFSAN068030_contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 61893 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 61954 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 62015 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 62076 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 62137 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 62198 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 62259 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 62321 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 62382 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 62449 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 62510 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 62571 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 62632 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 62693 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 62754 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 62815 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 62876 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 62937 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 62998 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 63060 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 63163 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 63224 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 63285 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 63346 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 63407 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 63468 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 63529 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 63590 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 63651 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 63712 29 96.6 0 A............................ | A [63738] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-3] 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], //