Array 1 998337-999584 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP017971.1 Salmonella enterica subsp. enterica serovar Montevideo str. USDA-ARS-USMARC-1901 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 998337 29 100.0 32 ............................. TTGAAGACCGCGCTGATGCAATCCGCCAGGCG 998398 29 100.0 32 ............................. TCGGCATTGATCTTGTTCAGTTCAGCCGGTGA 998459 29 100.0 32 ............................. TGACCACAGGTTTTTCGTCTGCTGATGTCGGC 998520 29 100.0 32 ............................. GACAAGCTGGAACGTGATCGGCTTACTGATGA 998581 29 100.0 32 ............................. CGCCGTAAATTGTGGTACGTCGTGACTACAGA 998642 29 100.0 32 ............................. GCGACCTGCTCGACAGCATTCAGTTTGTTGTT 998703 29 100.0 32 ............................. GCAGCCGTGCGCAAGCGTGGCCTGACGATGAG 998764 29 100.0 32 ............................. TGCTGTTTGCAGACCACACAGGCGACAAATTC 998825 29 100.0 32 ............................. AGGGTGAACGAAGTCACTCTTAAATTTCTGAA 998886 29 100.0 32 ............................. TATGAATTTAATGTTTATCCTGGGCGCTATGA 998947 29 100.0 32 ............................. GTTAGGGAAGGTACTCCTGGCTAATTCTTTTG 999008 29 96.6 32 ............................A TTAGTATCAGTATAAATAACCACGTATTCACC 999069 29 100.0 32 ............................. TATGAGCCGATCTGGAACGTGAGCGCTGAAAC 999130 29 96.6 32 ....A........................ AGTTCGGCAGGTTTTAGTTCCGTCGCGTTTGC 999191 29 100.0 32 ............................. AAAATATAAAGTATGTTTTGTTTAATTCTAAA 999252 29 100.0 32 ............................. GCAAAACTCCCCAGATACCGCGCATCGGCACT 999313 29 100.0 32 ............................. ATAAATTATCGGGAAATCATAATCAGCGCCGC 999374 29 100.0 32 ............................. TCGAGTTCTGGCACGTCAGACTGACGTATCGC 999435 29 100.0 32 ............................. AAAACCCTCAAATATGCGTAACGGGAGGCTGG 999496 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 999557 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCACGAAGTGCGCTGTACGCCTAACACCTGGGTAACGGTTTCACCAAAAGTGAATATGCGCGGGGGATATGACGTGCTTTCCCAGGCGCTGGAGCGCGCCAATGAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGAGCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 1016347-1018450 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP017971.1 Salmonella enterica subsp. enterica serovar Montevideo str. USDA-ARS-USMARC-1901 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1016347 29 100.0 32 ............................. CCCTGGTTAATGATGGTTGTCAGCTTAGCCAG 1016408 29 100.0 32 ............................. GTGGCAGCTGAGAACCCGGAGGTTATCCGGTG 1016469 29 100.0 32 ............................. GTGCCGTGTTTGAAATTCCCAACGATACGTTG 1016530 29 100.0 32 ............................. GCGCGGCTCGCATGTCAAAAATTGTCGATACT 1016591 29 100.0 32 ............................. TGGCAAACGAAAGGCCATGTTGGCATAAGTAG 1016652 29 100.0 32 ............................. ACGTATTACGTTTATGTCCGCACCAAAAATGC 1016713 29 100.0 32 ............................. AGACATCAATTACTCAGGACGGGATGATGTTT 1016774 29 100.0 32 ............................. TATGCTGAATTACAGGAAGGCAGGAAGTACGC 1016835 29 96.6 32 ............................T TACCTGGTTGAATTCGGTCTGACTCCGGCCGC 1016896 29 100.0 32 ............................. GCGCCCGCGGCGATTTAGCATAATCTGCAGTT 1016957 29 100.0 32 ............................. GAGGGGGTTTCTTCATCGTCTGATGAAAACGG 1017018 29 100.0 32 ............................. TCGGATGCATTGGGAGCGGGATTGCCGGAGCC 1017079 29 100.0 32 ............................. GCTTCCCAACCTACCTGGAGCCAGGCGCGTTC 1017140 29 100.0 32 ............................. CGGGCGCGGTCGAGAAACCATGCCTGCTGATA 1017201 29 100.0 32 ............................. CCATATACAGTGGCGAAATTCCTTTTCCTCTT 1017262 29 100.0 32 ............................. CGCAGGCAACGCTTCCCATTCCTCCTGCGACA 1017323 29 100.0 32 ............................. CAACAGCCGGGAAAATGAAGGCTGAAGGGCAA 1017384 29 100.0 32 ............................. AATCTAATTATGACGGCAAGGCGACTACTAAA 1017445 29 100.0 32 ............................. AATAATCACATCACCATCACGCGCGACAACAT 1017506 29 100.0 32 ............................. CGGTCTCCAGATAATAGCCGATTTATTTAAAA 1017567 29 100.0 32 ............................. GCCCGCATTAAGCCGCTGACGCACTGGATCAA 1017628 29 100.0 32 ............................. CGCTCGCAATCGAGGTTTGCGCCGAGTTGCGT 1017689 29 100.0 32 ............................. GGCAATCATTAACAGCGCCGTTAATTCAGCGA 1017750 29 100.0 32 ............................. GGAGACGAGAAAATCTTTAATAGTCTCAGCGT 1017811 29 100.0 32 ............................. GATTGGCCCTTAGATAACGGGAGATCAAGCGC 1017872 29 100.0 32 ............................. CATAACCTTCGCTACCACACTTGCCGGTACTT 1017933 29 100.0 32 ............................. CCTTGAGGTTAGGGGAGTCAGGAAATTGCATT 1017994 29 100.0 32 ............................. ACAAAATCGGCGGCCCAATCGCCGGCGCTGAC 1018055 29 100.0 32 ............................. GCCTGCCGTCTTTTTATTGAGGTCTGTAAACC 1018116 29 96.6 32 ............................T TAATCATTTTGTTTAAATCCCGGATCACCTCC 1018177 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 1018238 29 100.0 32 ............................. CCCGTTGAAGATCTGGACGCATGGGGCAAAGC 1018299 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 1018360 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 1018421 29 96.6 0 ............T................ | A [1018448] ========== ====== ====== ====== ============================= ================================ ================== 35 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGTGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-3] 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], //