Array 1 1175-48 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYDM01000024.1 Salmonella enterica subsp. enterica serovar Concord strain BCW_2663 NODE_24_length_86513_cov_4.23315, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1174 29 100.0 32 ............................. CTGTCACGTGAGCGTGAGCGCAGAAACGCACT 1113 29 100.0 32 ............................. CGTGGAAGGCGCAGATTCGTGGCGGTGCAGCT 1052 29 100.0 32 ............................. AATACAGACGCGGCAGTATTTGTGGAGGCGGC 991 29 100.0 32 ............................. AAATCCAACCCGACGGCACGGGGTTGTCAGTT 930 29 100.0 32 ............................. GGTACGCTCAAACAAATTTTTGTTGGTCTCGC 869 29 96.6 32 ............................A GTTCCTCGCCGGGTGCCAGCCTGTCGTAGATC 808 29 100.0 32 ............................. TCGACCCTCTTTAACCGGCTGAATACTCATCA 747 29 100.0 32 ............................. CCGCTCTGAATAGTTGACCACTCAGACCACGC 686 29 100.0 32 ............................. CAGCCGGACGGCACAGGGTTAACCGATATTTA 625 29 100.0 32 ............................. TAATCGCGTGCTTGGATTGTGGCGCATCCTCC 564 29 100.0 32 ............................. AATTACGTACGTTTGAGGGGTTGGGGATTCCG 503 29 100.0 32 ............................. CCCCACGCAATGGCGCTAGCACTGGTTACGGG 442 29 100.0 32 ............................. AGATAAAATCAGAAATTTACGCCGAACTTCAA 381 29 100.0 32 ............................. TGGACACGTTTAACGTTGACGTTGATAACATC 320 29 100.0 32 ............................. ATAATTGGTAGCACCGGTACGGGGAAATCAAC 259 29 100.0 32 ............................. ACTGGACGCCGCAGGGAGTTCTTATCAACGCT 198 29 100.0 32 ............................. CCTGATTAATCGGGGGATGTAATGGCAAACGA 137 29 100.0 32 ............................. TATTCAGCGTCAGATGAGCCTATGTCGCAACG 76 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GCGCCTGTATAGGTGGCGCGGAATGATGGACGAGTGTTCCAGATCGGA # 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 108239-106316 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYDM01000017.1 Salmonella enterica subsp. enterica serovar Concord strain BCW_2663 NODE_17_length_124960_cov_4.56191, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108238 29 100.0 32 ............................. CGCAGGACATCGGCGAGGATTGGCCAGGCCAT 108177 29 100.0 32 ............................. CGAAATCAGGCGTTTTTGGGTTTTCCTCAGTA 108116 29 100.0 32 ............................. GCTTTATGCTGCAAACTCTCCATCTCGGGAAG 108055 29 100.0 32 ............................. CGTAATTGGTAGTTCATCCGCTCATTTCATAT 107994 29 100.0 33 ............................. GCGTGCCTCATACATTCCATCACCTCCATCGCC 107932 29 100.0 32 ............................. AGCTATCGCGAAACGGTTTCGTAAGCCGTGAT 107871 29 100.0 32 ............................. CACGGAGTTAAACGCCGCTGCAGCGCTGTTTA 107810 29 100.0 32 ............................. ACGATTTCGAACGCGTCAGCGGTCCTGACTAC 107749 29 100.0 32 ............................. AGCAACATCGACAAACAGGCGCTACGTGAAAC 107688 29 96.6 32 C............................ TTCGCGCCAGATTTTAGCGAGGTGATACAGGT 107627 29 100.0 32 ............................. GATCAATATCCGCCACCTCTTTACCATCAACA 107566 29 100.0 32 ............................. GACGATGTTACCGGTGCTGATGTGCTGGATAC 107505 29 100.0 32 ............................. TATCACGGATAGGATATAAACACGGTTAAAAC 107444 29 100.0 32 ............................. TCGCTGTTAACCGCTCTCGCACTGCGTCAGGC 107383 29 100.0 32 ............................. CCCCTGGATTCACAGTAAAGCCGCGCCTTATA 107322 29 100.0 32 ............................. CGTTATCTTTTGAGCAGAGCACGCCGGGGACG 107261 29 100.0 32 ............................. ATTACTGATTTGTTCATTTTAATTCCCTTTGT 107200 29 100.0 32 ............................. GCATATGGAGAATACATTTACTCAGTGAATAT 107139 29 100.0 32 ............................. TTAGGGCATTCGGTCATAACGGATACGCCGCC 107078 29 100.0 32 ............................. AATATTTCTGGCGCCAGGTGCATTCCGTCGCA 107017 29 100.0 32 ............................. TTCTCTGGAATTATATTTTGTTCCGCACGTTC 106956 29 100.0 33 ............................. CCGTATCTGCTCTATCAGCTCGGCTCGGCGCGC 106894 29 100.0 32 ............................. CAAACTGTGATTATGTGCTGACTCAATCTTTT 106833 29 100.0 32 ............................. CTGACGGTAAAACTACGGTACCGCCGTAGTAA 106772 29 100.0 32 ............................. GGGCGGCTGTCGTGGGTATTGAGAACACCGCT 106711 29 100.0 32 ............................. AATTATCTATTTTTCTGGCCCGTTTTCAATGC 106650 29 100.0 32 ............................. TCTGGTCATAACATCGCAGCAAAATCAAAAGA 106589 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 106528 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 106467 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 106406 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 106345 29 100.0 0 ............................. | A [106318] ========== ====== ====== ====== ============================= ================================= ================== 32 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCATCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [53.3-71.7]%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 124961-124509 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYDM01000017.1 Salmonella enterica subsp. enterica serovar Concord strain BCW_2663 NODE_17_length_124960_cov_4.56191, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 124960 26 89.7 32 ---.......................... CGCCTGTATAGGTGGCGCGGAATGATGGACGA 124902 29 100.0 32 ............................. CGCCTGTATAGGTGGCGCGGAATGATGGACGA 124841 29 100.0 32 ............................. GAACGACCGGACTTATTCGCGCACACGAATGC 124780 29 100.0 32 ............................. AGGGATTACGCACCGGCAACCGTTGTTTGCCC 124719 29 100.0 32 ............................. GTGGTAATGGTGCCCGGTCCGGCCGGGTCGCA 124658 29 100.0 32 ............................. CCGTGGGGATGGCCGTGGGATGCGTCATGGTG 124597 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 124536 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATAGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAACTGGAGCGGATAAACCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGACAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [65.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //