Array 1 470605-472218 **** Predicted by CRISPRDetect 2.4 *** >NZ_QRCN01000001.1 Salmonella enterica subsp. enterica serovar Alachua strain 521/12 NODE_1_length_698692_cov_31.9848, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 470605 29 96.6 32 ............................A TTACCGTATGACAAGCGGGTAAAAAAAAGCCC 470666 29 100.0 32 ............................. AAAACATGCATATGGGCTGGTAACGGCTTTGT 470727 29 100.0 32 ............................. TCGTGACCATGAATAATGACGTCATCACCGCG 470788 29 100.0 32 ............................. TGCACATTATTTCAGGGCGAAATCTCGTCCGC 470849 29 100.0 32 ............................. ATGCTGGCGCATCATGTAAAATCGCGTGCCAA 470910 29 100.0 32 ............................. TCGGTTATTGAGGACGTCACCGACGACGCACT 470971 29 100.0 32 ............................. ACATTGAACCTCCTCAATAGGGCAGGTCGTTC 471032 29 100.0 32 ............................. GAACGACGACCAGATTAACGCCGGTCTGGAAA 471093 29 100.0 32 ............................. GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 471154 29 100.0 32 ............................. GCGCGGCATAACAGCACGGGCACGCCGCCAGG 471215 29 96.6 32 .................A........... ATAAATTATCGGGAAATCATAATCAGCGCCGC 471276 29 100.0 32 ............................. TCGAGTTCTGGCATGTCAGACTGACGTATCGC 471337 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 471398 29 96.6 32 .............T............... GCGCAGTATCAGGGAACGGCCGTTATTACGGT 471459 29 100.0 32 ............................. GCAATGGCAAGTAGTTCTCAGATGAAAGTCAG 471520 29 100.0 32 ............................. CCAACGGACGAGATCCTGGACTGCGACGGGCT 471581 29 100.0 32 ............................. GAAAGATTCACATTTAAAACTAGTGATTTTTC 471642 29 100.0 32 ............................. CGGGCGTTAACGTCCGAAGAGGTTCGCGAAAC 471703 29 100.0 32 ............................. TCTGGTGATTTGAAAGACTGGCACGCAGAGGA 471764 29 100.0 32 ............................. AAGATACAAAAAAGTACACGTAAAGTGCACGT 471825 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 471886 29 100.0 32 ............................. AAAAAAATGCGATCGGTACTCAACCCGGCCAC 471947 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 472008 29 100.0 32 ............................. TGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 472069 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 472130 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 472191 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCTAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 488477-489300 **** Predicted by CRISPRDetect 2.4 *** >NZ_QRCN01000001.1 Salmonella enterica subsp. enterica serovar Alachua strain 521/12 NODE_1_length_698692_cov_31.9848, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 488477 29 100.0 32 ............................. ACGAGTCGCAGGAGGGCGAAACCATATTATCC 488538 29 100.0 32 ............................. ACCCATATCAACGCACCGAAATTACGGACGGC 488599 29 100.0 32 ............................. ACGACTGAATTAAAACCATACGGCGGCTCATA 488660 29 100.0 32 ............................. ACGGGGAGTCAGTCACATCCATTGAGGATGCG 488721 29 100.0 32 ............................. CCTCCAGGATACCCCCACCGATGAAGGTGGGG 488782 29 100.0 32 ............................. CAGTATTTCGGTATGGCTAGCCACAGCGCGAA 488843 29 100.0 32 ............................. AAATCATTCATCATCGCGATAGCGATCGAATC 488904 29 100.0 32 ............................. GCGTTGGCGTCGCCCAACACCATCGCCGGGGC 488965 29 100.0 32 ............................. AATGCTTTGGCAAAATCAATTCCCCCAATTGA 489026 29 100.0 32 ............................. TCCGGGCGTACAGATATCATGAGTTCTGACGA 489087 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 489148 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 489210 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 489271 29 96.6 0 A............................ | A [489297] ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTACCGCCAGCGATACCAGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTGGAGATTCGTGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGTATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGCGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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], //