Array 1 1065-1916 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJGI01000198.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003349 NODE_224_length_16026_cov_13.898478, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ============================================================= ================== 1065 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 1126 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 1187 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 1248 29 100.0 32 ............................. ATAATTTGCTGAACTACGTCCGTATTGAGCTG 1309 29 100.0 32 ............................. TGGCCGGAGCCTAAAGACGGGGAGCCGCGTTT 1370 29 100.0 61 ............................. GGGGGTGATAACCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAACGCTACGC 1460 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 1521 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 1582 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 1643 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 1704 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 1765 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 1826 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1887 29 93.1 0 A...........T................ | A [1913] ========== ====== ====== ====== ============================= ============================================================= ================== 14 29 98.8 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATCCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.10, 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], // Array 1 16306-15211 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJGI01000082.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003349 NODE_88_length_48116_cov_13.561290, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16305 29 100.0 32 ............................. CCGGCGTGTGTTGTTGAGGATCAGTCTGGAGA 16244 29 100.0 32 ............................. CGGGCCATGTTCTTTTCCCTCTAAAAAATCCG 16183 29 96.6 32 ............................C GTTGCTCAAAAAACTGAACGAGGGTAACTACC 16122 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 16061 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 16000 29 100.0 0 ............................. - Deletion [15972] 15971 29 93.1 32 ..T...A...................... CCGGCATCAGCGCCGATCCGTTCATAGTGCCC C [15967] 15909 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 15848 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 15787 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 15726 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 15665 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 15604 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 15543 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 15482 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 15421 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 15360 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 15299 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15238 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.4 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTTGCGTATTTCGATTGTCTGGACATTTCGTACGTGTTCCCCGCGCCAGCGGGGATAAACCGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGAATATGATTTATATAGAACCAATGAACT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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: 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 [6-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //