Array 1 282088-279921 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINS01000002.1 Salmonella enterica subsp. enterica serovar Uganda strain HIY0235 NODE_2_length_757661_cov_47.209865, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 282087 29 100.0 32 ............................. TGAACTATATCAATATAAAACTCACTAAAATA 282026 29 100.0 32 ............................. CCACACGTTGAGCGTAAACCTCTGCCGTTTCC 281965 29 100.0 32 ............................. ACTCCGCCACCCGCGTGGCGGGTAATAAAAAA 281904 29 100.0 32 ............................. TCAAACATCAGCGATTCATCGACAGCGTATGA 281843 29 100.0 32 ............................. TATTCACTAAGCATTTCATTTTTTATAATGAT 281782 29 100.0 32 ............................. CGACCCCCCATTTTTCCGAATCGTAAACGAAC 281721 29 100.0 32 ............................. GGAGGTGATAACCGCCTCGCTGAACGCTACGC 281660 29 100.0 33 ............................. AACATCCAACGGATTCGCTTTACTCAACCATGC 281598 29 100.0 32 ............................. TCGTTTCGTGTTGCTTCATCTGGCAGGTCCAA 281537 29 100.0 32 ............................. TCAGTTACCGATGTTAAAGCAAAATCCGCTAA 281476 29 100.0 32 ............................. CGTAAGAGCCAGGCGATGCCAGGCACTAACTC 281415 29 100.0 32 ............................. GCATGACAGGGCGTATTCATCCCACGTGCGTT 281354 29 100.0 32 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCG 281293 29 100.0 32 ............................. ACAAAAGAAATTGTGACACCTAACACGGCCGA 281232 29 96.6 32 ............................T GTAGTTATACTAATAATGTAGTTGAGTAAGAG 281171 29 100.0 32 ............................. GAACTGATGGGCGCCATTACCGGCGAATTAGC 281110 29 100.0 32 ............................. GACTGGTATATCAACAATCATGAGCAATTCTG 281049 29 100.0 33 ............................. GAATCCCAATCTATTACCGGCACGTAGCCGGGG 280987 29 100.0 32 ............................. GCAATATCAACCGGGCGACCTGTCGCCTGCTC 280926 29 100.0 32 ............................. CTCTACGCTCGTTGCCCACGGAAAAGTCTCGT 280865 29 100.0 32 ............................. TAACCGGCACCTTTACCCTTGCGGAGGCTGAG 280804 29 100.0 32 ............................. ACGATTTCGAACGCGTCAGCGGTCCTGACTAC 280743 29 100.0 32 ............................. CATGGCTGAGGGGATGGCGCTTAAAGACTGGC 280682 29 100.0 32 ............................. CGGGCGTTAACGTCCGAAGAGGTTCGCGAAAC 280621 29 100.0 32 ............................. TGGCACGCCCCCGGCTTCTCTATCCGCGCTTT 280560 29 100.0 32 ............................. GTCACGTTCTGGAGTGTTCACAGCGTGAATTG 280499 29 100.0 32 ............................. CGGTTCCGTCATTGCAGATCCCCCACTTCATC 280438 29 100.0 32 ............................. TAACGCTTCAATGTCGCAAGCTTCAGTTCGTT 280377 29 100.0 32 ............................. GATTTACTAAGGTCAACGAGGGATTGAATTGG 280316 29 100.0 32 ............................. GCGAGGATCTTGTGTTGCAGGTTGGTCTCGCC 280255 29 100.0 32 ............................. CAGCGCCGTCCCGCTGCGCAGATGTTCGGTGA 280194 29 100.0 32 ............................. CAGGTCTATTGGACGATCGATAAAATCATTCA 280133 29 96.6 32 .............C............... ATAATAAGCTCAATAATGTAGATATTGAATCA 280072 29 96.6 32 .............C............... ACGACGGCACAAAAGAAATTTCCACCGTGGAT 280011 29 96.6 32 .............C............... TCGCACAACGCCTGGATATCCGCCCATCGGCC 279950 29 93.1 0 .............C.A............. | A [279923] ========== ====== ====== ====== ============================= ================================= ================== 36 29 99.4 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : CGCCAGTGCTGCGCATTCTTGCTCCGGAGTGGGATGACGCGCCGCGAGAGAACTGGTTATCCAGCGCCATGCGTAACAGCGCCTATGTCTATCCCGATCATGGGCGCATGTGGCTGACGCAGCGCATATTACGTGAGCAGGGGACGATTCGGATGCCGCAATCTGCCCGCTTGTTGATTGAGTCGGTCTACGGTGAGGATGTCAACATGCCGGTTGGATTTGCAAAAACCGAGCAATTGCAGGAAGGCAAATTTTATTGCGACCGGGCATTTGCCGGCCAGATGCTGCTTAACTTTGCGCCGGGCTACTGTGCTGAAATTAGCGATTCTTTACCGGAGAAAATGTCAACGCGGCTGGCGGAAGAGTCTGTCACGCTGTGGCTGGCGAAAATCGTGGATAGCGTCGTAACCCCTTATGCCAGCGGTGAACACGCCTGGGAGATGAGCGTGCTGCGAGTACGTCAGAGCTGGTGGAATAAACATAAAGACGAGTTTGAAAAA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 292586-292314 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINS01000002.1 Salmonella enterica subsp. enterica serovar Uganda strain HIY0235 NODE_2_length_757661_cov_47.209865, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 292585 29 100.0 32 ............................. GTGGATATGCTGGCCGAGAAGGTTGGAACAGA 292524 29 100.0 32 ............................. CCATCCTGGCGGAACTGTATGCAGAAACAGGC 292463 29 100.0 32 ............................. GACTACCCGGCATTTGTGGACGCATATCGGCA 292402 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 292341 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [2-0] 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], //