Array 1 974710-975956 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025232.1 Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1925 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 974710 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 974771 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 974832 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 974893 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 974954 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 975015 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 975076 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 975137 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 975198 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 975259 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 975320 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 975381 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 975442 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 975503 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 975564 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 975625 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 975686 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 975747 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 975808 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 975869 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 975929 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-8] 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 2 983901-985802 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025232.1 Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1925 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 983901 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 983962 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 984023 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 984084 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 984145 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 984206 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 984267 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 984328 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 984389 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 984450 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 984511 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 984572 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 984633 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 984694 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 984755 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 984816 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 984877 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 984938 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 984999 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 985060 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 985121 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 985182 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 985243 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 985304 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 985365 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 985426 29 100.0 74 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCATGTGTTCCCCGCGCCAGTTCTTCAGCTGGCAACGACAGAATGC 985529 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 985590 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 985651 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 985712 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 985773 29 100.0 0 ............................. | A [985800] ========== ====== ====== ====== ============================= ========================================================================== ================== 31 29 99.8 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAGAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.08, 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-48.3]%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], //