Array 1 289059-292117 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQQ01000003.1 Salmonella enterica subsp. enterica serovar Senftenberg strain NY_FSL S10-1815 NODE_3_length_559336_cov_50.8439_ID_3358, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 289059 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 289120 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 289181 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 289242 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 289303 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 289364 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 289425 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 289486 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 289547 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 289608 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 289669 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 289730 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 289791 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 289852 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 289913 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 289974 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 290035 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 290096 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 290157 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 290218 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 290279 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 290340 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 290401 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [290421] Deletion [290441] 290443 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 290504 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 290565 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 290626 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 290687 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 290748 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 290809 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 290870 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 290931 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 290992 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 291053 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 291114 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 291175 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 291236 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 291297 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 291358 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 291419 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 291480 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 291541 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 291602 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 291663 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 291724 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 291785 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 291846 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 291907 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 291968 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 292029 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 292090 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 51 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.02, 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 [1-8] 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 308663-311133 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQQ01000003.1 Salmonella enterica subsp. enterica serovar Senftenberg strain NY_FSL S10-1815 NODE_3_length_559336_cov_50.8439_ID_3358, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 308663 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 308724 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 308785 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 308846 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 308907 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 308968 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 309029 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 309090 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 309151 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 309212 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 309273 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 309334 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 309395 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 309456 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 309517 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 309578 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 309639 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 309700 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 309761 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 309822 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 309883 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 309944 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 310005 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 310066 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 310127 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 310188 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 310249 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 310311 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 310372 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 310433 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 310494 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 310555 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 310616 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 310677 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 310738 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 310799 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 310860 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 310921 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 310982 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 311043 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 311104 29 100.0 0 ............................. | A [311131] ========== ====== ====== ====== ============================= ================================= ================== 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], //