Array 1 16452-15204 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJGG01000013.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003351 NODE_13_length_43678_cov_16.655525, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16451 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 16390 29 100.0 32 ............................. TGCTTCCTGCTGATTTTCTGCGTCTACTGGAT 16329 29 100.0 32 ............................. GCAGAATATGATTTATATAGAACCAATGAACT 16268 29 100.0 32 ............................. CCGGCGTGTGTTGTTGAGGATCAGTCTGGAGA 16207 29 100.0 32 ............................. CGGGCCATGTTCTTTTCCCTCTAAAAAATCCG 16146 29 96.6 32 ............................C GTTGCTCAAAAAACTGAACGAGGGTAACTACC 16085 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 16024 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 15963 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 15902 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 15841 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 15780 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 15719 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 15658 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 15597 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 15536 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 15475 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 15414 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 15353 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 15292 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15231 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTCTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # 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: 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 [6-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28545-27600 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJGG01000091.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003351 NODE_99_length_29427_cov_15.757536, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28544 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 28483 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 28422 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 28361 29 100.0 32 ............................. CGTTATAAGGCGGTAACGGCGAAAACATATGA 28300 29 100.0 32 ............................. CGCACGATCTACAGTCCAGCTATTCGGGATGG 28239 29 100.0 32 ............................. ATTTTTGCCTCCAGCGCGAACAGCATGGCGCC 28178 29 100.0 32 ............................. TCCGACTCGCCAACCTGGTCTATGTGCTCTAT 28117 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 28056 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 27995 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 27934 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 27873 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 27812 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 27751 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 27690 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 27629 29 93.1 0 A...........T................ | A [27602] ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATCCGT # 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: 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //