Array 1 109759-107857 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROJ01000046.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN001 contig46, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109758 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 109697 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 109636 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 109575 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 109514 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 109453 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 109392 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 109331 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 109270 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 109209 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 109148 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 109087 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 109026 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 108965 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 108904 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 108843 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 108782 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 108721 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 108660 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 108599 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 108538 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 108477 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 108416 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 108355 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 108294 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 108233 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 108172 27 69.0 15 ................T--TCT.C.G.T. GCAACGACAGAATGC Deletion [108131] 108130 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 108069 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108008 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 107947 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 107886 29 100.0 0 ............................. | A [107859] ========== ====== ====== ====== ============================= ================================ ================== 32 29 98.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAGAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.03, 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 [14-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-58.3]%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], // Array 1 7409-6162 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROJ01000047.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN001 contig47, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 7408 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 7347 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 7286 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 7225 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 7164 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 7103 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 7042 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 6981 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 6920 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 6859 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 6798 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 6737 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 6676 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 6615 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 6554 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 6493 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 6432 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 6371 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 6310 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 6249 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6189 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # 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: 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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], //