Array 1 19120-18175 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJGF01000004.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003352 NODE_4_length_108203_cov_20.823942, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 19119 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 19058 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 18997 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 18936 29 100.0 32 ............................. CGTTATAAGGCGGTAACGGCGAAAACATATGA 18875 29 100.0 32 ............................. CGCACGATCTACAGTCCAGCTATTCGGGATGG 18814 29 100.0 32 ............................. ATTTTTGCCTCCAGCGCGAACAGCATGGCGCC 18753 29 100.0 32 ............................. TCCGACTCGCCAACCTGGTCTATGTGCTCTAT 18692 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 18631 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 18570 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 18509 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 18448 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 18387 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 18326 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 18265 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 18204 29 93.1 0 A...........T................ | A [18177] ========== ====== ====== ====== ============================= ================================ ================== 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], // Array 2 37031-35783 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJGF01000004.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003352 NODE_4_length_108203_cov_20.823942, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 37030 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 36969 29 100.0 32 ............................. TGCTTCCTGCTGATTTTCTGCGTCTACTGGAT 36908 29 100.0 32 ............................. GCAGAATATGATTTATATAGAACCAATGAACT 36847 29 100.0 32 ............................. CCGGCGTGTGTTGTTGAGGATCAGTCTGGAGA 36786 29 100.0 32 ............................. CGGGCCATGTTCTTTTCCCTCTAAAAAATCCG 36725 29 96.6 32 ............................C GTTGCTCAAAAAACTGAACGAGGGTAACTACC 36664 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 36603 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 36542 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 36481 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 36420 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 36359 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 36298 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 36237 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 36176 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 36115 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 36054 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 35993 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 35932 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 35871 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 35810 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], //