Array 1 28781-27957 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZAA01000001.1 Salmonella enterica subsp. enterica serovar Alachua strain 04-0301 NODE_1_length_470491_cov_3.79936, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 28780 29 100.0 32 ............................. ACGAGTCGCAGGAGGGCGAAACCATATTATCC 28719 29 100.0 32 ............................. ACCCATATCAACGCACCGAAATTACGGACGGC 28658 29 100.0 32 ............................. ACGACTGAATTAAAACCATACGGCGGCTCATA 28597 29 100.0 32 ............................. ACGGGGAGTCAGTCACATCCATTGAGGATGCG 28536 29 100.0 32 ............................. CCTCCAGGATACCCCCACCGATGAAGGTGGGG 28475 29 100.0 32 ............................. CAGTATTTCGGTATGGCTAGCCACAGCGCGAA 28414 29 100.0 32 ............................. AAATCATTCATCATCGCGATAGCGATCGAATC 28353 29 100.0 32 ............................. GCGTTGGCGTCGCCCAACACCATCGCCGGGGC 28292 29 100.0 32 ............................. AATGCTTTGGCAAAATCAATTCCCCCAATTGA 28231 29 100.0 32 ............................. TCCGGGCGTACAGATATCATGAGTTCTGACGA 28170 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 28109 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 28047 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 27986 29 96.6 0 A............................ | A [27959] ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTACCGCCAGCGATACCAGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTGGAGATTCGTGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGTATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGCGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-70.0]%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 46592-45039 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZAA01000001.1 Salmonella enterica subsp. enterica serovar Alachua strain 04-0301 NODE_1_length_470491_cov_3.79936, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 46591 29 96.6 32 ............................A TTACCGTATGACAAGCGGGTAAAAAAAAGCCC 46530 29 100.0 32 ............................. AAAACATGCATATGGGCTGGTAACGGCTTTGT 46469 29 100.0 32 ............................. TCGTGACCATGAATAATGACGTCATCACCGCG 46408 29 100.0 32 ............................. TGCACATTATTTCAGGGCGAAATCTCGTCCGC 46347 29 100.0 32 ............................. ATGCTGGCGCATCATGTAAAATCGCGTGCCAA 46286 29 100.0 32 ............................. TCGGTTATTGAGGACGTCACCGACGACGCACT 46225 29 100.0 32 ............................. ACATTGAACCTCCTCAATAGGGCAGGTCGTTC 46164 29 100.0 32 ............................. GAACGACGACCAGATTAACGCCGGTCTGGAAA 46103 29 100.0 32 ............................. GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 46042 29 100.0 32 ............................. GCGCGGCATAACAGCACGGGCACGCCGCCAGG 45981 29 96.6 32 .................A........... ATAAATTATCGGGAAATCATAATCAGCGCCGC 45920 29 100.0 32 ............................. TCGAGTTCTGGCATGTCAGACTGACGTATCGC 45859 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 45798 29 96.6 32 .............T............... GCGCAGTATCAGGGAACGGCCGTTATTACGGT 45737 29 100.0 32 ............................. GCAATGGCAAGTAGTTCTCAGATGAAAGTCAG 45676 29 100.0 32 ............................. CCAACGGACGAGATCCTGGACTGCGACGGGCT 45615 29 100.0 32 ............................. GAAAGATTCACATTTAAAACTAGTGATTTTTC 45554 29 100.0 32 ............................. CGGGCGTTAACGTCCGAAGAGGTTCGCGAAAC 45493 29 100.0 32 ............................. TCTGGTGATTTGAAAGACTGGCACGCAGAGGA 45432 29 100.0 32 ............................. AAGATACAAAAAAGTACACGTAAAGTGCACGT 45371 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 45310 29 100.0 32 ............................. AAAAAAATGCGATCGGTACTCAACCCGGCCAC 45249 29 100.0 32 ............................. TGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 45188 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 45127 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 45066 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCTAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [6-1] 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], //