Array 1 251683-249942 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPE01000002.1 Salmonella enterica subsp. enterica serovar Thompson strain 140 NODE_2_length_698023_cov_29.1987, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 251682 29 100.0 32 ............................. AGTTTATTACCCCGCCATTTTTCAGTCGTCGC 251621 29 100.0 32 ............................. CGGTACGACGTAAACTGCGCGCCCGGACTGAT 251560 29 100.0 32 ............................. GAGGCTATCGGGACACAGGCAAACGTCGTGGC 251499 29 100.0 32 ............................. TTTGGTTGATGCGTCAAACCTCGCTAACTTTG 251438 29 100.0 32 ............................. GCGGAATAATAAATGGAGTGCCATTTGTAGCA 251377 29 100.0 32 ............................. GAGCGATGTTGGCATGGCATTGGTTTACTGTA 251316 29 100.0 32 ............................. TAGAGCCGTGTGTTAGCAGATAATCAGTATTA 251255 29 100.0 32 ............................. AAGCCGGACCACATTTTTCTTGCCGAACTCAC 251194 29 100.0 32 ............................. GCTGTTGCCGACGTCGGGCTTAAACACCACTG 251133 29 100.0 32 ............................. GACGCTTCACCTGCATCAAATTCTCCTCCAGT 251072 29 100.0 32 ............................. GCGGGCAACAATTTTAGAGGGGCTGCATTCGC 251011 29 100.0 33 ............................. ACTACATAGATAACCAAAAATCCACTGGCAAGC 250949 29 100.0 33 ............................. CGCACGCGGGTTGCGTAACGGATATACGACAGC 250887 29 100.0 32 ............................. TCGCAGAACAGCTCTGCTTCCTTTGCGGAGAC 250826 29 100.0 32 ............................. TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 250765 29 100.0 32 ............................. GGACAGCACAGTTGATTACAGCAAAATTTACG 250704 29 96.6 32 ............T................ ACACGCCAGCCAACAATATTAATTTTGTCGTC 250643 29 100.0 32 ............................. CCTTGGCGGCAGCCACCTGAGCAACTGTCGGG 250582 29 100.0 32 ............................. CAGCTTCTTAACGAGGAGATTAACAGCGACGT 250521 29 100.0 32 ............................. TTAATGCGGTCATTGGTCATGTCTCTAAAAGA 250460 29 100.0 32 ............................. ACTGTAGTTGCGGGTCAGGTTCCGGAATATCA 250399 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 250337 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 250276 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 250215 29 100.0 32 ............................. CACCCAGCGGGTAAACTGATCAGCAGCAGCAC 250154 29 100.0 32 ............................. AACCCTCAGAAAATAATCCAGACGTTACCGAA 250093 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 250032 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 249971 29 93.1 0 A..............A............. | A [249944] ========== ====== ====== ====== ============================= ================================= ================== 29 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAATCTGAATCACTGGGTGATAGTGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGAAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [3-0] 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 268735-267853 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPE01000002.1 Salmonella enterica subsp. enterica serovar Thompson strain 140 NODE_2_length_698023_cov_29.1987, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 268734 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 268673 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 268612 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCAGACCGATCGACTA 268551 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 268490 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 268429 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 268368 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 268307 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 268246 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 268185 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 268124 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 268063 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 268002 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 267941 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 267880 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGAAATGTGGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: 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 [63.3-68.3]%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], //