Array 1 33-672 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROR01000006.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN009 contig1_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 33 29 100.0 32 ............................. CGGCCGAACGTTACGGCGACGAGGTCGAGAAA 94 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 155 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 216 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 277 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 338 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 399 29 96.6 32 ..................A.......... CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 460 29 96.6 32 ............T................ AAGCCATTGACGCAACGGAAAACGCCAATGCT 521 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 582 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGT 643 29 100.0 0 ............................. | A [670] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCATCAAGATAAACATCATAGCGAGCACCTGG # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATAGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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: R [28.3-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 44844-46275 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROR01000005.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN009 contig1_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44844 29 96.6 32 ..........T.................. CTTTCCGAATTAATGACGGAGTTATCGATATA 44905 29 96.6 32 ..........T.................. AGTCGGCTTGGACGTTGACGGCACACCCTTCC 44966 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 45027 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 45088 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 45149 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 45210 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 45271 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 45332 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 45393 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 45454 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 45515 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 45576 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 45637 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 45698 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 45759 29 100.0 32 ............................. CCGGTACGCGAGGGGATTAACCTCCGGGCCGA 45820 29 96.6 32 ............................A CTCGGATGGTTACGCCAGATGTATGCAATTTC 45881 29 100.0 32 ............................. TGTTCTCCTATCTGCGGCAAATTAAGCTGAAT 45942 29 100.0 33 ............................. AAAACTTGATACTCGATTATCGCTATCCCCTGC 46004 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 46065 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 46126 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 46187 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 46248 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTGTTCCCCGTGCCAGCGGGGATAAACCG # 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 [0-7] 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 55413-56356 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROR01000005.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN009 contig1_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 55413 29 100.0 32 ............................. AGAAGAATTCTTTTGCCTGCGCGTCGTTCATA 55474 29 100.0 32 ............................. TAACTGACACTGAAAGAAATAACCCTCTGTGG 55535 29 100.0 32 ............................. CCGCGCCGGTGTGGCACCTCCACGAATCGTTA 55596 29 100.0 32 ............................. GCGCAAATACGCGGCGGTGCAGCTACCGAAGC 55657 29 100.0 32 ............................. ACGCCCTGCACAATAATTTACGGCGGGACACT 55718 29 100.0 32 ............................. TGCCACCGGCGTGCTCCATATGACGGGCGTTT 55779 29 100.0 32 ............................. AATTCAGGAATGTTTTGCGGGTAAATTTTGTG 55840 29 100.0 32 ............................. TCCACCGGGAAAATAGTCCAAATGGCTAACGC 55901 29 100.0 32 ............................. CGCAGAAGGCAGCGGGCAGTGTCAGCGCTGAC 55962 29 100.0 32 ............................. CACAATGAAGAGGGAACAACAAATGGACTCAG 56023 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 56084 29 96.6 32 A............................ TTAATCCCCACGGCCAGGAGGTATTGATCAAC 56145 29 100.0 32 ............................. GTGCACGTTAGCCGCGTAGCTGAATTAGGTTG 56206 29 100.0 32 ............................. AGGCACGAAAAGCCATGGCCGCCGCAAAATCC 56267 29 100.0 32 ............................. GGCGAGCAGATAAACACCGAAAACCTGCACGC 56328 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTCTAACAGACCGGAGGAAGTGAGGTGGCTTAACCATGGATAACCCGCGTTATCGCTACCACCAGCGCTCATAAATCCCGCGCCATCGCTAAACGCATTAAGTAATTTTTCCCGTAAAGCGGCGGGAAGAGTGGCGCTCAGAATAATAGCGCTACCGCCCTGGGCGGCATGGAAGCGCAATAAACCTTCCAGCAATTTAACCATATAACCATCATAGGCGTGCACTTCATCCAGCAGCAGGATTTTGTCGCGCATCCCTAGCAATCGGAGTGATTGATGGCGAAAAGGCATCACCGCCATTAAGAGTTGATCCAGAGTACCTACGCCGACTTCCGCCAGCAGCGCTTTTTTGCGTGAATCTGCAAACCAGGTATGGCACTCAGTAGTCGCGTTGCCATCATCACGGGCATAATCTTCAGCTATATTTTCTGTTGGCTGCCAGATGGATTGTCGGAAAGAGTCCGACATTTCTCGCCCACCGTGTGCCAGGATGAGCGATG # Right flank : GATTTATCAAATGAAACTCT # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [45.0-25.0]%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], //