Array 1 164461-162559 **** Predicted by CRISPRDetect 2.4 *** >NZ_WFIO01000002.1 Salmonella enterica subsp. enterica serovar Newport strain 2393 NODE_2_length_648257_cov_65.7046, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 164460 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 164399 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 164338 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 164277 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 164216 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 164155 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 164094 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 164033 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 163972 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 163911 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 163850 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 163789 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 163728 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 163667 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 163606 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 163545 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 163484 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 163423 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 163362 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 163301 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 163240 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 163179 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 163118 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 163057 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 162996 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 162935 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 162874 27 69.0 15 ................T--TCT.C.G.T. GCAACGACAGAATGC Deletion [162833] 162832 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 162771 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 162710 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 162649 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 162588 29 100.0 0 ............................. | A [162561] ========== ====== ====== ====== ============================= ================================ ================== 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 2 173652-172405 **** Predicted by CRISPRDetect 2.4 *** >NZ_WFIO01000002.1 Salmonella enterica subsp. enterica serovar Newport strain 2393 NODE_2_length_648257_cov_65.7046, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 173651 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 173590 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 173529 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 173468 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 173407 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 173346 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 173285 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 173224 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 173163 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 173102 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 173041 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 172980 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 172919 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 172858 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 172797 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 172736 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 172675 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 172614 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 172553 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 172492 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 172432 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], //