Array 1 16311-15124 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEO01000003.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43821 N43821_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16310 29 100.0 32 ............................. AATACTATCCTGCAATGCGCTACCACGTTACT 16249 29 100.0 32 ............................. TGATAACGCATGGGAGTCCAGATTACAAATTC 16188 29 100.0 32 ............................. TGCTGGATACACGCGTTTCAATGGTCAGAGTT 16127 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 16066 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 16005 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 15944 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 15883 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCAGACCGATCGACTA 15822 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 15761 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 15700 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 15639 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 15578 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 15517 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 15456 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 15395 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 15334 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 15273 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 15212 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 15151 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGAAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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 [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 1069-2565 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEO01000032.1 Salmonella enterica subsp. enterica serovar Thompson strain CVM N43821 N43821_contig_32, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1069 29 100.0 32 ............................. AGTTTATTACCCCGCCATTTTTCAGTCGTCGC 1130 29 100.0 32 ............................. CGGTACGACGTAAACTGCGCGCCCGGACTGAT 1191 29 100.0 32 ............................. GAGGCTATCGGGACACAGGCAAACGTCGTGGC 1252 29 100.0 32 ............................. TAGAGCCGTGTGTTAGCAGATAATCAGTATTA 1313 29 100.0 32 ............................. AAGCCGGACCACATTTTTCTTGCCGAACTCAC 1374 29 100.0 32 ............................. GCTGTTGCCGACGTCGGGCTTAAACACCACTG 1435 29 100.0 32 ............................. GACGCTTCACCTGCATCAAATTCTCCTCCAGT 1496 29 100.0 32 ............................. GCGGGCAACAATTTTAGAGGGGCTGCATTCGC 1557 29 100.0 33 ............................. ACTACATAGATAACCAAAAATCCACTGGCAAGC 1619 29 100.0 33 ............................. CGCACGCGGGTTGCGTAACGGATATACGACAGC 1681 29 100.0 32 ............................. TCGCAGAACAGCTCTGCTTCCTTTGCGGAGAC 1742 29 100.0 32 ............................. TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 1803 29 100.0 32 ............................. GGACAGCACAGTTGATTACAGCAAAATTTACG 1864 29 96.6 32 ............T................ ACACGCCAGCCAACAATATTAATTTTGTCGTC 1925 29 100.0 32 ............................. CCTTGGCGGCAGCCACCTGAGCAACTGTCGGG 1986 29 100.0 32 ............................. CAGCTTCTTAACGAGGAGATTAACAGCGACGT 2047 29 100.0 32 ............................. ACTGTAGTTGCGGGTCAGGTTCCGGAATATCA 2108 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 2170 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2231 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2292 29 100.0 32 ............................. CACCCAGCGGGTAAACTGATCAGCAGCAGCAC 2353 29 100.0 32 ............................. AACCCTCAGAAAATAATCCAGACGTTACCGAA 2414 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2475 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2536 29 93.1 0 A..............A............. | A [2562] ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAATCTGAATCACTGGGTGATAGTGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGAAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //