Array 1 1-517 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHH01000096.1 Salmonella enterica strain BCW_5889 NODE_96_length_555_cov_5.78846, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 28 93.1 32 -............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 61 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 122 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 183 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 245 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 306 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 367 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 428 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 489 29 93.1 0 .................A........T.. | ========== ====== ====== ====== ============================= ================================= ================== 9 29 96.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : AAACGAAAGAGGCTATGCGGTTGTTTATCGGTGTGTTC # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.81, # 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 : GTGTTCCCCGCGCCAGCAGGGATAAATCG # 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: R [4-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.68 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 88349-89962 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHH01000003.1 Salmonella enterica strain BCW_5889 NODE_3_length_268738_cov_3.62184, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88349 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88410 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88471 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 88532 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 88593 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 88654 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 88715 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 88776 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 88837 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 88898 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 88959 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 89020 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 89081 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 89142 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 89203 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 89264 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 89325 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 89386 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89447 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89508 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 89569 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 89630 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 89691 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 89752 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 89813 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 89874 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 89935 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 106095-106899 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYHH01000003.1 Salmonella enterica strain BCW_5889 NODE_3_length_268738_cov_3.62184, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 106095 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 106156 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 106217 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106278 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106339 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106401 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 106462 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [106504] 106504 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106565 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106626 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106687 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106748 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106809 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106870 29 96.6 0 A............................ | A [106896] ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.11, 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 [0-3] 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], //