Array 1 108368-105286 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZEN01000001.1 Salmonella enterica subsp. enterica serovar Kiambu strain 04-0678 NODE_1_length_527251_cov_0.324681, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108367 29 100.0 32 ............................. CGCCCCTCATCCACCAGGGCGATGTGATTCCC 108306 29 100.0 32 ............................. TGGTAGCCGACGGGCGTATTGCGGGGTGCATA 108245 29 100.0 32 ............................. GCTGTTTTGACTTTGGATCGTGAGCAGAGCGT 108184 29 100.0 32 ............................. CGCGTTCAGACATTTATCAAAAAACGCGACGC 108123 29 100.0 32 ............................. TTTGCCGCCTCGTAGTAATCCACCAGGCCAGC 108062 29 100.0 32 ............................. TTTTGAGAAATAGCCATCTTTTTTAACTAACT 108001 29 100.0 32 ............................. CGAACGGTGCTGAAATTATTGAAAATGCGGTA 107940 29 100.0 32 ............................. ACAGTTTGTTGAAATCTACGACTTGAGGACTA 107879 29 100.0 32 ............................. GACAAACGCGCGGCTGGAGTCAGGATCAGATA 107818 29 100.0 32 ............................. GACGACAGTTATATGAAAACGCATTGAGCGGT 107757 29 100.0 32 ............................. TTATCGATCGTCCAATCGACCTGCATCTCGGT 107696 29 100.0 32 ............................. CGATTCCAGGCGAACGCGCGTCTCAGCAGGCA 107635 29 100.0 32 ............................. GACACTGGTCTATTATCGCCCACCGGAAGAAT 107574 29 100.0 32 ............................. CCGCACCGCTGGACAGTCGAAGAACTGGCAGA 107513 29 100.0 32 ............................. TCTAAAACTTCCTGAAATTTACGCTCTAGTGC 107452 29 100.0 32 ............................. GTATCGATCAACACTAATTCGCCAGTGTTCAG 107391 29 100.0 32 ............................. TGGCGCCGTAGGGGGTTGCAGAATTTTATAAA 107330 29 100.0 32 ............................. GCGAACCCTCATCTGTTACTGGATCAGTGCGT 107269 29 100.0 32 ............................. AATTGCCCTTGCTGCCCGGCTCTTCTACGGTC 107208 29 100.0 32 ............................. CATCCAGACGAAAAAGCGCGTTTCGCGGCGCT 107147 29 100.0 32 ............................. CTGGTTGTTGGCTTTTACATGGATTCTGGTCT 107086 29 100.0 32 ............................. CGGCTAACGAGTGTCGCCCGTGGAAACGTAAC 107025 29 100.0 33 ............................. GATCGCTCCGTTCGCGTCGAACACCCGGAGGGG 106963 29 100.0 32 ............................. GGGGAGAGAGGAAAGGGGGGTTTGGGGGGTAT 106902 29 100.0 32 ............................. ATCGTTGTGGTCCGCGTTGCTGAGGACGAGGA 106841 29 100.0 32 ............................. CGCGACAGCGCGTTTCACTGCATCGTCCATAA 106780 29 100.0 33 ............................. CCAGTCAGCACCAGACCAGAAGCCGTTAACCGC 106718 29 100.0 32 ............................. TTGAAGATTTGGTGAAGGGCGCATTTGAGGAC 106657 29 100.0 32 ............................. TTGAAGATTTGGTGAAGGGCGCATTTGAGGAC 106596 29 100.0 32 ............................. TTCGTGCTTAATAGAGGAGGCTGGTTAGATAT 106535 29 100.0 32 ............................. GCGGGACTGTTAGGGATAGACCCCGGAGATTT 106474 29 100.0 32 ............................. GCAACACAGGGTTTAACCGGTTCCCTGGCGCT 106413 29 100.0 31 ............................. ACCAGATTAAAGTCGGTCTGGAAATGGTCAT 106353 29 100.0 32 ............................. TTATCTGGACAGGTGACAGCGAACACGAAATC G [106352] 106291 29 100.0 32 ............................. CCTGATCGCCAATATCTGAATATGATTTATTC 106230 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 106169 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 106108 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 106047 29 96.6 32 .............T............... CCGGGTGCACGCTTTTATTTTTTATGACTCCC 105986 29 96.6 32 .............T............... CAATTTTTAACGATCACTCAGATAAAACAGCA 105925 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 105864 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 105803 29 96.6 32 .............T............... ACCTATATGCGCGCCACGGGTAAGACCTGGGA 105742 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 105681 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 105620 29 96.6 32 .......................T..... CACTTGTAATTCTTCGAGTTTATCGATGAATT 105559 29 100.0 32 ............................. ACGTTTATTCATCAAATGGGGAGATTCTGCTG 105498 29 100.0 32 ............................. TCACGCGGGCCCCCTTATTGGGTCGGGCAGGT 105437 29 100.0 32 ............................. TTCCGCCATGACCGTTTCGGCCTCCAGCTTTC 105376 29 93.1 32 .........................GT.. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 105315 29 96.6 0 A............................ | A [105288] ========== ====== ====== ====== ============================= ================================= ================== 51 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGTACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCAAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGTGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 124902-124508 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZEN01000001.1 Salmonella enterica subsp. enterica serovar Kiambu strain 04-0678 NODE_1_length_527251_cov_0.324681, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 124901 29 100.0 32 ............................. GTAATTTTACCAAAAATTCTTTCTTTTTCTTC 124840 29 100.0 32 ............................. CCGCCAGTGCCGCCTTTAGAATATCTGTATTA 124779 29 100.0 32 ............................. GACGTATTGATAGTTTAGACAGTAAAGTTGAT 124718 29 100.0 32 ............................. CGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 124657 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 124596 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 124535 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTATCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGGAGGCTTTTCTACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTAGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGACAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAACTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCTCTACCGATTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [5-0] 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], //