Array 1 4149-3023 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJZM01000110.1 Salmonella enterica strain FDA858387-175 SRR1537517_NODE_112_ID_223, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 4148 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 4087 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 4026 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 3965 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 3904 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 3843 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 3782 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 3721 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 3660 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 3599 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 3538 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 3477 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 3416 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 3355 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 3294 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 3233 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 3172 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 3111 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 3050 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # 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: 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 8-1747 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJZM01000281.1 Salmonella enterica strain FDA858387-175 SRR1537517_NODE_283_ID_565, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 69 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 130 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 191 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 252 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 313 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 374 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 435 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 496 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 557 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 619 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 680 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 742 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 803 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 864 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 925 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 986 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 1047 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 1108 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 1169 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 1230 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 1291 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 1352 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 1413 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 1474 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 1535 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 1596 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 1657 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1718 29 89.7 0 A...........TC............... | A [1744] ========== ====== ====== ====== ============================= ================================= ================== 29 29 98.1 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : CCGCAACG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.88, # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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: R [3.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 2581-2852 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJZM01000433.1 Salmonella enterica strain FDA858387-175 SRR1537517_NODE_436_ID_871, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2581 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 2642 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 2703 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 2764 28 79.3 31 ............AGC.......-.C..G. TGATCCGGAGCGGTTCGATCTGCTTGTGGCC 2823 29 72.4 0 .G...AT..C...........GA.C..G. | C [2841] ========== ====== ====== ====== ============================= ================================ ================== 5 29 90.3 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GCTGGTGGGAACATCAAACACCTACGTTGACGGTTTATCCCCGCTAGCGCGGGGGACACATCGACTGGCTCAAGGAGGGGCAGGGGTCCGGCGGGTTATCCCCGCAGACG # Questionable array : NO Score: 5.37 # Score Detail : 1:0, 2:3, 3:0, 4:0.51, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-15] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-40.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //