Array 1 1393-22 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDRK01000033.1 Salmonella enterica subsp. enterica serovar Newport strain 82 NODE_33_length_7656_cov_3.10758, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1392 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 1331 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 1270 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 1209 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 1148 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 1087 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 1026 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 965 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 904 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 843 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 782 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 721 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 660 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 599 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 538 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 477 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 416 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 355 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 294 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 233 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 172 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 111 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 50 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GCAGCAGATGAAAAATATTTAC # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: R [25.0-68.3]%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 1 121-1428 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDRK01000083.1 Salmonella enterica subsp. enterica serovar Newport strain 82 NODE_83_length_1498_cov_2.62655, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 121 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 182 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 243 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 304 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 365 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 426 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 487 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 548 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 609 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 670 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 731 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 792 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 853 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 914 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 975 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 1036 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 1097 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 1158 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 1219 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 1280 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 1341 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 1401 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGAATCCGTTTAGTG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28655-27527 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDRK01000020.1 Salmonella enterica subsp. enterica serovar Newport strain 82 NODE_20_length_51163_cov_19.0739, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28654 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 28593 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 28532 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 28471 29 100.0 32 ............................. CGTTATAAGGCGGTAACGGCGAAAACATATGA 28410 29 100.0 32 ............................. CGCACGATCTACAGTCCAGCTATTCGGGATGG 28349 29 100.0 32 ............................. ATTTTTGCCTCCAGCGCGAACAGCATGGCGCC 28288 29 100.0 32 ............................. TCCGACTCGCCAACCTGGTCTATGTGCTCTAT 28227 29 100.0 32 ............................. CGTCGTCATTGCCGATCCTTTAACGTCCAAAT 28166 29 100.0 32 ............................. ATAATTTGCTGAACTACGTCCGTATTGAGCTG 28105 29 100.0 32 ............................. TGGCCGGAGCCTAAAGACGGGGAGCCGCGTTT 28044 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 27983 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 27922 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 27861 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 27800 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 27739 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 27678 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 27617 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 27556 29 93.1 0 A...........T................ | A [27529] ========== ====== ====== ====== ============================= ================================ ================== 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 45418-44902 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDRK01000020.1 Salmonella enterica subsp. enterica serovar Newport strain 82 NODE_20_length_51163_cov_19.0739, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 45417 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 45356 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45295 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 45234 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 45173 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 45112 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 45051 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 44990 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 44929 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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: 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], //