Array 1 109931-108253 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDW01000007.1 Salmonella enterica subsp. enterica serovar Uganda strain 65-4815 NODE_7_length_339152_cov_4.80351, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 109930 29 100.0 32 ............................. TGAACTATATCAATATAAAACTCACTAAAATA 109869 29 100.0 32 ............................. CCACACGTTGAGCGTAAACCTCTGCCGTTTCC 109808 29 100.0 32 ............................. ACTCCGCCACCCGCGTGGCGGGTAATAAAAAA 109747 29 100.0 32 ............................. TCAAACATCAGCGATTCATCGACAGCGTATGA 109686 29 100.0 32 ............................. TATTCACTAAGCATTTCATTTTTTATAATGAT 109625 29 100.0 32 ............................. CGACCCCCCATTTTTCCGAATCGTAAACGAAC 109564 29 100.0 32 ............................. GGAGGTGATAACCGCCTCGCTGAACGCTACGC 109503 29 100.0 33 ............................. AACATCCAACGGATTCGCTTTACTCAACCATGC 109441 29 100.0 32 ............................. TCGTTTCGTGTTGCTTCATCTGGCAGGTCCAA 109380 29 100.0 32 ............................. TCAGTTACCGATGTTAAAGCAAAATCCGCTAA 109319 29 100.0 32 ............................. GCAATATCAACCGGGCGACCTGTCGCCTGCTC 109258 29 100.0 32 ............................. CTCTACGCTCGTTGCCCACGGAAAAGTCTCGT 109197 29 100.0 32 ............................. TAACCGGCACCTTTACCCTTGCGGAGGCTGAG 109136 29 100.0 32 ............................. ACGATTTCGAACGCGTCAGCGGTCCTGACTAC 109075 29 100.0 32 ............................. CATGGCTGAGGGGATGGCGCTTAAAGACTGGC 109014 29 100.0 32 ............................. CGGGCGTTAACGTCCGAAGAGGTTCGCGAAAC 108953 29 100.0 32 ............................. TGGCACGCCCCCGGCTTCTCTATCCGCGCTTT 108892 29 100.0 32 ............................. GTCACGTTCTGGAGTGTTCACAGCGTGAATTG 108831 29 100.0 32 ............................. CGGTTCCGTCATTGCAGATCCCCCACTTCATC 108770 29 100.0 32 ............................. TAACGCTTCAATGTCGCAAGCTTCAGTTCGTT 108709 29 100.0 32 ............................. GATTTACTAAGGTCAACGAGGGATTGAATTGG 108648 29 100.0 32 ............................. GCGAGGATCTTGTGTTGCAGGTTGGTCTCGCC 108587 29 100.0 32 ............................. CAGCGCCGTCCCGCTGCGCAGATGTTCGGTGA 108526 29 100.0 32 ............................. CAGGTCTATTGGACGATCGATAAAATCATTCA 108465 29 96.6 32 .............C............... ATAATAAGCTCAATAATGTAGATATTGAATCA 108404 29 96.6 32 .............C............... ACGACGGCACAAAAGAAATTTCCACCGTGGAT 108343 29 96.6 32 .............C............... TCGCACAACGCCTGGATATCCGCCCATCGGCC 108282 29 93.1 0 .............C.A............. | A [108255] ========== ====== ====== ====== ============================= ================================= ================== 28 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 120429-120157 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDW01000007.1 Salmonella enterica subsp. enterica serovar Uganda strain 65-4815 NODE_7_length_339152_cov_4.80351, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 120428 29 100.0 32 ............................. GTGGATATGCTGGCCGAGAAGGTTGGAACAGA 120367 29 100.0 32 ............................. CCATCCTGGCGGAACTGTATGCAGAAACAGGC 120306 29 100.0 32 ............................. GACTACCCGGCATTTGTGGACGCATATCGGCA 120245 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 120184 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], // Array 1 4-398 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDW01000049.1 Salmonella enterica subsp. enterica serovar Uganda strain 65-4815 NODE_49_length_420_cov_0.593472, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 ............................. ACATCTCGCGGACAATAGCGATTTCCACCGTC 65 29 100.0 32 ............................. CCGGGTGCACGCTTTTATTTTTTATGACTCCC 126 29 100.0 32 ............................. CAATTTTTAACGATCACTCAGATAAAACAGCA 187 29 100.0 32 ............................. AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 248 29 100.0 32 ............................. CAGGATTGGATTAATGAAGACGGGTACGAAAT 309 29 100.0 32 ............................. ACCTATATGCGCGCCACGGGTAAGACCTGGGA 370 29 96.6 0 .............C............... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 99.5 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : CGTG # Right flank : GAGGTAAACGCAGCGGTACCCC # 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: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-13.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //