Array 1 107688-106272 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUJA01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033887 CFSAN033887_contig0007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107687 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107626 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107564 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107503 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107442 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107381 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107320 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107259 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107198 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107137 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107076 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107015 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106954 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106892 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106789 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106728 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106667 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106606 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106545 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106484 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106423 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106362 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106301 29 96.6 0 A............................ | A [106274] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [-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 125069-123820 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUJA01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033887 CFSAN033887_contig0007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125068 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 125007 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 124946 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 124885 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 124824 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 124763 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 124702 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 124641 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 124580 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 124519 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 124458 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124397 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124335 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124274 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124213 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124152 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124091 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 124030 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123969 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123908 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123847 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 21 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [8-0] 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], //