Array 1 28604-27476 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJBW01000001.1 Salmonella enterica strain CFSAN035815 SRR4734587_NODE_1_ID_4900, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28603 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 28542 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 28481 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 28420 29 100.0 32 ............................. CGTTATAAGGCGGTAACGGCGAAAACATATGA 28359 29 100.0 32 ............................. CGCACGATCTACAGTCCAGCTATTCGGGATGG 28298 29 100.0 32 ............................. ATTTTTGCCTCCAGCGCGAACAGCATGGCGCC 28237 29 100.0 32 ............................. TCCGACTCGCCAACCTGGTCTATGTGCTCTAT 28176 29 100.0 32 ............................. CGTCGTCATTGCCGATCCTTTAACGTCCAAAT 28115 29 100.0 32 ............................. ATAATTTGCTGAACTACGTCCGTATTGAGCTG 28054 29 100.0 32 ............................. TGGCCGGAGCCTAAAGACGGGGAGCCGCGTTT 27993 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 27932 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 27871 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 27810 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 27749 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 27688 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 27627 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 27566 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 27505 29 93.1 0 A...........T................ | A [27478] ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.1 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 45946-44851 **** Predicted by CRISPRDetect 2.4 *** >NZ_QJBW01000001.1 Salmonella enterica strain CFSAN035815 SRR4734587_NODE_1_ID_4900, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 45945 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 45884 29 100.0 32 ............................. TGCTTCCTGCTGATTTTCTGCGTCTACTGGAT 45823 29 100.0 32 ............................. GCAGAATATGATTTATATAGAACCAATGAACT 45762 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 45701 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 45640 29 100.0 0 ............................. - Deletion [45612] 45611 29 93.1 32 ..T...A...................... CCGGCATCAGCGCCGATCCGTTCATAGTGCCC C [45607] 45549 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 45488 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 45427 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 45366 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 45305 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45244 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 45183 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 45122 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 45061 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 45000 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 44939 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 44878 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.6 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [6-3] 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], //