Array 1 251703-249923 **** Predicted by CRISPRDetect 2.4 *** >NZ_SMPR01000003.1 Salmonella enterica subsp. enterica serovar Newport strain SL_31_120 contig00003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 251702 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 251641 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 251580 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 251519 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 251458 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 251397 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 251336 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 251275 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 251214 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 251153 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 251092 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 251031 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 250970 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 250909 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 250848 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 250787 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 250726 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 250665 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 250604 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 250543 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 250482 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 250421 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 250360 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 250299 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 250238 27 69.0 15 ................T--TCT.C.G.T. GCAACGACAGAATGC Deletion [250197] 250196 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 250135 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 250074 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 250013 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 249952 29 100.0 0 ............................. | A [249925] ========== ====== ====== ====== ============================= ================================ ================== 30 29 98.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAGAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.04, 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 [14-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-58.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 260772-259647 **** Predicted by CRISPRDetect 2.4 *** >NZ_SMPR01000003.1 Salmonella enterica subsp. enterica serovar Newport strain SL_31_120 contig00003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 260771 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 260710 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 260649 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 260588 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 260527 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 260466 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 260405 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 260344 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 260283 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 260222 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 260161 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 260100 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 260039 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 259978 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 259917 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 259856 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 259795 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 259734 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 259674 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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], //