Array 1 419744-420838 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJBU01000002.1 Salmonella enterica strain CFSAN035817 SRR4734582_NODE_2_ID_4157, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 419744 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 419805 29 100.0 32 ............................. TGCTTCCTGCTGATTTTCTGCGTCTACTGGAT 419866 29 100.0 32 ............................. GCAGAATATGATTTATATAGAACCAATGAACT 419927 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 419988 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 420049 29 100.0 1 ............................. G Deletion [420079] 420079 29 86.2 32 T.TC..A...................... CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 420140 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 420201 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 420262 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 420323 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 420384 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 420445 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 420506 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 420567 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 420628 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 420689 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 420750 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 420811 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.2 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.15, 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 [0-6] 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 437086-438213 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJBU01000002.1 Salmonella enterica strain CFSAN035817 SRR4734582_NODE_2_ID_4157, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 437086 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 437147 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 437208 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 437269 29 100.0 32 ............................. CGTTATAAGGCGGTAACGGCGAAAACATATGA 437330 29 100.0 32 ............................. CGCACGATCTACAGTCCAGCTATTCGGGATGG 437391 29 100.0 32 ............................. ATTTTTGCCTCCAGCGCGAACAGCATGGCGCC 437452 29 100.0 32 ............................. TCCGACTCGCCAACCTGGTCTATGTGCTCTAT 437513 29 100.0 32 ............................. CGTCGTCATTGCCGATCCTTTAACGTCCAAAT 437574 29 100.0 32 ............................. ATAATTTGCTGAACTACGTCCGTATTGAGCTG 437635 29 100.0 32 ............................. TGGCCGGAGCCTAAAGACGGGGAGCCGCGTTT 437696 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 437757 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 437818 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 437879 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 437940 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 438001 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 438062 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 438123 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 438184 29 93.1 0 A...........T................ | A [438210] ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATCCG # 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%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], //