Array 1 421737-422862 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXML01000001.1 Salmonella enterica subsp. enterica serovar Alachua strain BCW_1608 NODE_1_length_677193_cov_3.58865, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 421737 29 96.6 32 ............................A TTACCGTATGACAAGCGGGTAAAAAAAAGCCC 421798 29 100.0 32 ............................. AAAACATGCATATGGGCTGGTAACGGCTTTGT 421859 29 100.0 32 ............................. TCGTGACCATGAATAATGACGTCATCACCGCG 421920 29 100.0 32 ............................. TGCACATTATTTCAGGGCGAAATCTCGTCCGC 421981 29 100.0 32 ............................. ATGCTGGCGCATCATGTAAAATCGCGTGCCAA 422042 29 100.0 32 ............................. GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 422103 29 100.0 32 ............................. GCGCGGCATAACAGCACGGGCACGCCGCCAGG 422164 29 96.6 32 .................A........... ATAAATTATCGGGAAATCATAATCAGCGCCGC 422225 29 100.0 32 ............................. TCGAGTTCTGGCATGTCAGACTGACGTATCGC 422286 29 100.0 32 ............................. CGGGCGTTAACGTCCGAAGAGGTTCGCGAAAC 422347 29 100.0 32 ............................. TCTGGTGATTTGAAAGACTGGCACGCAGAGGA 422408 29 100.0 32 ............................. AAGATACAAAAAAGTACACGTAAAGTGCACGT 422469 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 422530 29 100.0 32 ............................. AAAAAAATGCGATCGGTACTCAACCCGGCCAC 422591 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 422652 29 100.0 32 ............................. TGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 422713 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 422774 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 422835 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCTAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [1-6] 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 439121-439944 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXML01000001.1 Salmonella enterica subsp. enterica serovar Alachua strain BCW_1608 NODE_1_length_677193_cov_3.58865, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 439121 29 100.0 32 ............................. ACGAGTCGCAGGAGGGCGAAACCATATTATCC 439182 29 100.0 32 ............................. ACCCATATCAACGCACCGAAATTACGGACGGC 439243 29 100.0 32 ............................. ACGACTGAATTAAAACCATACGGCGGCTCATA 439304 29 100.0 32 ............................. ACGGGGAGTCAGTCACATCCATTGAGGATGCG 439365 29 100.0 32 ............................. CCTCCAGGATACCCCCACCGATGAAGGTGGGG 439426 29 100.0 32 ............................. CAGTATTTCGGTATGGCTAGCCACAGCGCGAA 439487 29 100.0 32 ............................. AAATCATTCATCATCGCGATAGCGATCGAATC 439548 29 100.0 32 ............................. GCGTTGGCGTCGCCCAACACCATCGCCGGGGC 439609 29 100.0 32 ............................. AATGCTTTGGCAAAATCAATTCCCCCAATTGA 439670 29 100.0 32 ............................. TCCGGGCGTACAGATATCATGAGTTCTGACGA 439731 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 439792 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 439854 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 439915 29 96.6 0 A............................ | A [439941] ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTACCGCCAGCGATACCAGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTGGAGATTCGTGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGTATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-50.0]%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], //