Array 1 24-296 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXZR01000198.1 Salmonella enterica subsp. enterica serovar Schwarzengrund strain BCW_2775 NODE_198_length_345_cov_2.30216, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 24 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 85 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 146 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 207 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 268 29 93.1 0 .................A........T.. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGTGGCTGGGGTTTCGATTCGATG # Right flank : AAACGAAAGAGGCTATGCGGTTGTTTATCGGTGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [18.3-36.7]%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 44971-46098 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXZR01000034.1 Salmonella enterica subsp. enterica serovar Schwarzengrund strain BCW_2775 NODE_34_length_46125_cov_4.02015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 44971 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 45032 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 45093 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 45154 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 45215 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 45276 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 45337 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 45398 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 45459 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 45520 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 45581 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 45642 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 45703 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 45764 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 45825 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45886 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45947 29 93.1 32 ......................C.C.... CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT A [45969] 46009 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 46070 29 96.6 0 .............T............... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : ATGCCGGAACGCTGATGGCGGCGGTTT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-16.7]%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 1 22646-20925 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXZR01000078.1 Salmonella enterica subsp. enterica serovar Schwarzengrund strain BCW_2775 NODE_78_length_22646_cov_3.85566, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 22645 29 96.6 32 C............................ TGAGCAACGACAGTAAATAATTTTTCGTGCTG 22584 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 22523 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 22462 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 22401 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 22340 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 22278 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 22217 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 22156 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 22095 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 22034 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 21973 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 21912 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 21851 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 21790 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 21729 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 21668 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 21606 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 21503 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 21442 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 21381 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 21320 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 21259 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 21198 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 21137 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 21076 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 21015 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 20954 29 96.6 0 A............................ | A [20927] ========== ====== ====== ====== ============================= ========================================================================== ================== 28 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.09, 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 [3-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28-543 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXZR01000138.1 Salmonella enterica subsp. enterica serovar Schwarzengrund strain BCW_2775 NODE_138_length_4800_cov_3.64906, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 89 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 150 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 211 29 89.7 32 A............T...A........... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 272 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 333 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 394 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 455 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 516 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 95.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGGTTTTAATTTCGTCGCTAAGCTGCG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 : 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 [2-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [25.0-63.3]%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], //