Array 1 50-2132 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXGZ01000016.1 Salmonella enterica subsp. enterica serovar Senftenberg strain BCW_2124 NODE_16_length_129024_cov_4.38379, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 50 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 111 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 172 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 233 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 294 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 355 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 416 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 477 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 538 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 599 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 660 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 721 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 782 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 843 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 904 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 965 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 1026 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 1129 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 1190 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 1251 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 1312 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 1373 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 1434 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 1495 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 1556 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 1617 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 1678 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 1739 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 1800 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 1861 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 1922 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 1983 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 2044 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 2105 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ========================================================================== ================== 34 29 99.1 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGATCACAGAACTGACCGGGTACACCATACCTG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.07, 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: R [36.7-63.3]%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], // Array 2 18678-21148 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXGZ01000016.1 Salmonella enterica subsp. enterica serovar Senftenberg strain BCW_2124 NODE_16_length_129024_cov_4.38379, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 18678 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 18739 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 18800 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 18861 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 18922 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 18983 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 19044 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 19105 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 19166 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 19227 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 19288 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 19349 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 19410 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 19471 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 19532 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 19593 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 19654 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 19715 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 19776 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 19837 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 19898 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 19959 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 20020 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 20081 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 20142 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 20203 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 20264 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 20326 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 20387 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 20448 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 20509 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 20570 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 20631 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 20692 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 20753 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 20814 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 20875 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 20936 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 20997 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 21058 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 21119 29 100.0 0 ............................. | A [21146] ========== ====== ====== ====== ============================= ================================= ================== 41 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-46.7]%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 1 326-53 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXGZ01000006.1 Salmonella enterica subsp. enterica serovar Senftenberg strain BCW_2124 NODE_6_length_189598_cov_4.36125, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 325 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 264 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 203 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 142 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 81 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTGATCACAGAACTGACCGGGTACACCATACCTGTGTTCCCCGCGCAGATCGG # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [36.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //