Array 1 37-1347 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDZ01000016.1 Salmonella enterica subsp. enterica serovar Kiambu strain 84-0491 NODE_16_length_106765_cov_4.19422, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 37 29 100.0 32 ............................. TTCGTGCTTAATAGAGGAGGCTGGTTAGATAT 98 29 100.0 32 ............................. GCGGGACTGTTAGGGATAGACCCCGGAGATTT 159 29 100.0 32 ............................. GCAACACAGGGTTTAACCGGTTCCCTGGCGCT 220 29 100.0 32 ............................. ACCAGATTAAAGTCGGTCTGGAAATGGTCATG 281 29 100.0 32 ............................. TTATCTGGACAGGTGACAGCGAACACGAAATC 342 29 100.0 32 ............................. CCTGATCGCCAATATCTGAATATGATTTATTC 403 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 464 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 525 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 586 29 96.6 32 .............T............... CCGGGTGCACGCTTTTATTTTTTATGACTCCC 647 29 96.6 32 .............T............... CAATTTTTAACGATCACTCAGATAAAACAGCA 708 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 769 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 830 29 96.6 32 .............T............... ACCTATATGCGCGCCACGGGTAAGACCTGGGA 891 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 952 29 100.0 32 ............................. GAGGTAAACGCAGCGGTACCCCTGCGGGGTAT 1013 29 96.6 32 .......................T..... CACTTGTAATTCTTCGAGTTTATCGATGAATT 1074 29 100.0 32 ............................. ACGTTTATTCATCAAATGGGGAGATTCTGCTG 1135 29 100.0 32 ............................. TCACGCGGGCCCCCTTATTGGGTCGGGCAGGT 1196 29 100.0 32 ............................. TTCCGCCATGACCGTTTCGGCCTCCAGCTTTC 1257 29 93.1 32 .........................GT.. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1318 29 96.6 0 A............................ | A [1344] ========== ====== ====== ====== ============================= ================================ ================== 22 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGTTGAAGATTTGGTGAAGGGCGCATTTGAGGACG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGTACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCAAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGTGTCACTCATTCG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [30.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 282-737 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDZ01000097.1 Salmonella enterica subsp. enterica serovar Kiambu strain 84-0491 NODE_97_length_794_cov_0.72843, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 282 29 100.0 32 ............................. CCTCTCCCGATAATTTGTATCCACCGGGTTTC 343 29 100.0 32 ............................. GCTATCACCGCGGCGCATAGCCTTACCTATTT 404 29 100.0 32 ............................. CTGCCGGGGGCACAGGTTCATATTCCAGAAAA 465 29 100.0 32 ............................. GGAAAACGGAAATTGTCCGCATGTTGAAAACC 526 29 100.0 32 ............................. TTCCAGAATGGTGCGTTCTACTTTTTGCGCTG 587 29 96.6 32 .........G................... GAGTGGAGCAACAAAACGGACTGGGTGCAGGG 648 29 96.6 32 .........G................... TCGGTGATACTTCGTCGCTGTCGTCTCATGCC 709 29 96.6 0 .........G................... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 98.7 32 GTGTTCCCCACGTCAGCGGGGATAAACCG # Left flank : AACGCATTCGAGAGATGATCTGGCAACAGATTACACAACTGGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGGGAAAACCGCCGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCCCTTTAAAATCAATGAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTAACGTTGGTAGTTTGTTGAGTGGTAAAAAAAGGCTTTTAGAACAAATACATAGTTTTAGTG # Right flank : CGTCGGGCAGGCGGTAACAATTGCGCCCGCTTGTGTTCCCCGCGTCAGCGGGGATAA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 : GTGTTCCCCACGTCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGTCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [6,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCACGTCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-7.00,-10.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-33.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1797-58 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDZ01000025.1 Salmonella enterica subsp. enterica serovar Kiambu strain 84-0491 NODE_25_length_63293_cov_4.30853, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1796 29 100.0 32 ............................. CGCCCCTCATCCACCAGGGCGATGTGATTCCC 1735 29 100.0 32 ............................. TGGTAGCCGACGGGCGTATTGCGGGGTGCATA 1674 29 100.0 32 ............................. GCTGTTTTGACTTTGGATCGTGAGCAGAGCGT 1613 29 100.0 32 ............................. CGCGTTCAGACATTTATCAAAAAACGCGACGC 1552 29 100.0 32 ............................. TTTGCCGCCTCGTAGTAATCCACCAGGCCAGC 1491 29 100.0 32 ............................. TTTTGAGAAATAGCCATCTTTTTTAACTAACT 1430 29 100.0 32 ............................. CGAACGGTGCTGAAATTATTGAAAATGCGGTA 1369 29 100.0 32 ............................. ACAGTTTGTTGAAATCTACGACTTGAGGACTA 1308 29 100.0 32 ............................. GACAAACGCGCGGCTGGAGTCAGGATCAGATA 1247 29 100.0 32 ............................. GACGACAGTTATATGAAAACGCATTGAGCGGT 1186 29 100.0 32 ............................. TTATCGATCGTCCAATCGACCTGCATCTCGGT 1125 29 100.0 32 ............................. CGATTCCAGGCGAACGCGCGTCTCAGCAGGCA 1064 29 100.0 32 ............................. GACACTGGTCTATTATCGCCCACCGGAAGAAT 1003 29 100.0 32 ............................. CCGCACCGCTGGACAGTCGAAGAACTGGCAGA 942 29 100.0 32 ............................. TCTAAAACTTCCTGAAATTTACGCTCTAGTGC 881 29 100.0 32 ............................. GTATCGATCAACACTAATTCGCCAGTGTTCAG 820 29 100.0 32 ............................. TGGCGCCGTAGGGGGTTGCAGAATTTTATAAA 759 29 100.0 32 ............................. GCGAACCCTCATCTGTTACTGGATCAGTGCGT 698 29 100.0 32 ............................. AATTGCCCTTGCTGCCCGGCTCTTCTACGGTC 637 29 100.0 32 ............................. CATCCAGACGAAAAAGCGCGTTTCGCGGCGCT 576 29 100.0 32 ............................. CTGGTTGTTGGCTTTTACATGGATTCTGGTCT 515 29 100.0 32 ............................. CGGCTAACGAGTGTCGCCCGTGGAAACGTAAC 454 29 100.0 33 ............................. GATCGCTCCGTTCGCGTCGAACACCCGGAGGGG 392 29 100.0 32 ............................. GGGGAGAGAGGAAAGGGGGGTTTGGGGGGTAT 331 29 100.0 32 ............................. ATCGTTGTGGTCCGCGTTGCTGAGGACGAGGA 270 29 100.0 32 ............................. CGCGACAGCGCGTTTCACTGCATCGTCCATAA 209 29 100.0 33 ............................. CCAGTCAGCACCAGACCAGAAGCCGTTAACCGC 147 29 100.0 32 ............................. TTGAAGATTTGGTGAAGGGCGCATTTGAGGAC 86 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 29 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTGAAGATTTGGTGAAGGGCGCATTTGAGGACGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [41.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 18331-17937 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDZ01000025.1 Salmonella enterica subsp. enterica serovar Kiambu strain 84-0491 NODE_25_length_63293_cov_4.30853, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 18330 29 100.0 32 ............................. GTAATTTTACCAAAAATTCTTTCTTTTTCTTC 18269 29 100.0 32 ............................. CCGCCAGTGCCGCCTTTAGAATATCTGTATTA 18208 29 100.0 32 ............................. GACGTATTGATAGTTTAGACAGTAAAGTTGAT 18147 29 100.0 32 ............................. CGGTCGCAGCCTGGCCTGTTGCCGTAGAATCG 18086 29 96.6 32 .........T................... AGTTACTGATGCAGACTGCGGATCTTAATCGG 18025 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 17964 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], // Array 1 37-432 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDZ01000297.1 Salmonella enterica subsp. enterica serovar Kiambu strain 84-0491 NODE_297_length_437_cov_0.497143, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 37 29 100.0 32 ............................. TGATCGGTCAACTGTCCAACTGTCGGGAATTT 98 29 100.0 32 ............................. AACGACAAAACCCACTGGGTAATTTTTGTTAA 159 29 100.0 32 ............................. AAATTAAAGTCGCGCGCGATCGGGCGTTTGCG 220 29 100.0 32 ............................. GATCGTGCTTCAAGACACTGGCGTAATATGCG 281 29 100.0 33 ............................. TTCTCGCTCTCCATTCCACACCTTGCCGCTGAC 343 29 100.0 32 ............................. CCGCTCATAACGTCGATTTTTACGGGGATAAT 404 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 7 29 100.0 32 GTGTTCCCCGCGTCAGCGGGGATAAACCG # Left flank : ACCGATGTTCGCGAGCCAGTGAGTAATCGTGAAATCG # Right flank : GAACA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : GTGTTCCCCGCGTCAGCGGGGATAAACCG # 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 GTGTTCCCCGCGTCAGCGGGGATAAACCG 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [30.0-5.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //