Array 1 428856-430104 **** Predicted by CRISPRDetect 2.4 *** >NZ_VUIY01000001.1 Salmonella enterica subsp. enterica serovar Java strain 158900 contig01, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 428856 29 100.0 32 ............................. ACGCTGGCCGAAAACGGATTTTCAATCCGCAT 428917 29 100.0 32 ............................. TATTCATCTGCTGCCGCCTGGTTTGTTTTATC 428978 29 100.0 32 ............................. GGATCGGCAAACTTGTTTTAACGCCGGACAAC 429039 29 100.0 32 ............................. CCCCTTCTGATCCCCTTTCAATTTCGCGCTTA 429100 29 100.0 32 ............................. TATGATCCGCCATAGAAACAAATACAAAAATG 429161 29 100.0 32 ............................. CTGTTTTGCAACCGCATCCCCGGATTCGGGAT 429222 29 100.0 32 ............................. TTGCCACAACCACAATGGATCAGGAGCAATTA 429283 29 100.0 32 ............................. AATTATCGAAAGGAGTTACTCAGGGGGGAGAC 429344 29 100.0 32 ............................. CAGCGGAAGCGATCAGTGGTCTCGATACGGAA 429405 29 96.6 32 ...................A......... GGCTCAGGTTGATGATTCTCATGAGACACAAT 429466 29 100.0 32 ............................. GGGTGATCATGACGATCCAGAGCATATTGCCC 429527 29 100.0 32 ............................. GATTGAGAGAAGGGCTTGCTTAGCTTCCTTCC 429588 29 96.6 32 ..................A.......... TGGGGCTGTAAGGTCCGTTTAATATCCACTCA 429649 29 100.0 32 ............................. TTCGTTAATTATATTACAATACAAATCATAAC 429710 29 96.6 33 ............................A GCCTTCCGGTACGTCGTCATTTTCAGTCAGCGG 429772 29 96.6 32 ............T................ CAAAATTAATGTCCAGGACCTTATTAAGTTAC 429833 29 96.6 32 ............T................ GAAGGATTACCACCCCGGCAGCGCTCACCCGT 429894 29 100.0 32 ............................. GCGTTAGCGCGTTACATCCGGTTTGAGGCTGA 429955 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 430016 29 96.6 32 .............T............... CCGGATGAAAACGCCTACCCGGAAGACTACGA 430077 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 21 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACATGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%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 445383-446877 **** Predicted by CRISPRDetect 2.4 *** >NZ_VUIY01000001.1 Salmonella enterica subsp. enterica serovar Java strain 158900 contig01, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 445383 29 100.0 32 ............................. GTACGTCGAAGTATGCTGAATTACAGGAAGGC 445444 29 100.0 32 ............................. CCCGCCGTCTGTTTGCGGTTTTGAGCGCCCGA 445505 29 100.0 32 ............................. GCCGGTCGGCGGTATTACTCAATATTTATACG 445566 29 100.0 32 ............................. TTAGCAATAGGCTACGGCGATAAAACTTTTAA 445627 29 100.0 32 ............................. TTTCGAAATTCCTGCTCGATGTCGACCGCCGG 445688 29 100.0 32 ............................. GGATAAAGACGACGTTGAAGAAGCCGAACACG 445749 29 100.0 32 ............................. CTGCTGAGGGCGAATAACAAAATCATCAACCA 445810 29 100.0 32 ............................. CCTTGCTAGTGGGGAAGCGCTACGATTCACGA 445871 29 100.0 32 ............................. GTGAGCGCCGCCTTGGTACTGGCCTTTTGAGT 445932 29 100.0 32 ............................. GGTATGTTTCCGAAGACCTCGGCTGGCCTTTT 445993 29 96.6 33 ............T................ CAACGTTTCACTGTCGAGATAGCTATTGTCCGC 446055 29 100.0 32 ............................. GCAAACGAGTCTGTTTTGCAGACGTGTCTGGA 446116 29 100.0 32 ............................. CCCCGGCCTGATCTCGATCGGTGACGTAGGCA 446177 29 100.0 32 ............................. AATTTGAATGCACTGGTATTAACGACGAATAT 446238 29 100.0 32 ............................. CGCGGTCATACTTCAGGATCTGCTCTGTTGTT 446299 29 100.0 32 ............................. CCATTCTCGTTGTCGGTCATCTAGCGGTTGCG 446360 29 100.0 32 ............................. CCCAGTCAGGGGCGCGATATTGCCGCCGTGTT 446421 29 100.0 32 ............................. TATCGAGCGTTGTTTCGGTGCGGGCCTGAGCT 446482 29 100.0 32 ............................. AGGGCTACCCGGTTGCGCGTATTGATGCCCCG 446543 29 100.0 32 ............................. TTGTGCGGCAACGCCCGTTTTTATCGGTGGAC 446604 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 446665 29 100.0 32 ............................. TTTGCCGCTGCTCGGTGAGGGAGCGTTTCATA 446726 29 100.0 32 ............................. CGCAACTATCCATGCAAATATTTCCATTGCTA 446787 29 100.0 32 ............................. GCAGCACTGGCTGGAGTGGCTGGCGAAAAATC 446848 29 96.6 0 ............T................ | A [446875] ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [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], //