Array 1 252278-249807 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUTT01000001.1 Salmonella enterica strain CFSAN071938 CFSAN071938_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 252277 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 252216 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 252155 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 252094 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 252033 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 251972 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 251911 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 251850 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 251789 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 251728 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 251667 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 251606 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 251545 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 251484 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 251423 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 251362 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 251301 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 251240 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 251179 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 251118 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 251057 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 250996 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 250935 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 250874 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 250813 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 250752 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 250691 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 250629 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 250568 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 250507 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 250446 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 250385 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 250324 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 250263 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 250202 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 250141 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 250080 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 250019 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 249958 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 249897 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 249836 29 100.0 0 ............................. | A [249809] ========== ====== ====== ====== ============================= ================================= ================== 41 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [48.3-70.0]%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 2 271821-268823 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUTT01000001.1 Salmonella enterica strain CFSAN071938 CFSAN071938_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 271820 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 271759 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 271698 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 271637 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 271576 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 271515 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 271454 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 271393 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 271332 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 271271 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 271210 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 271149 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 271088 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 271027 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 270966 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 270905 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 270844 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 270783 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 270722 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 270661 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 270600 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 270497 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 270436 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 270375 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 270314 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 270253 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 270192 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 270131 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 270070 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 270009 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 269948 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 269887 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 269826 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 269765 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 269704 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 269643 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 269582 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 269521 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 269460 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 269399 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 269338 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 269277 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 269216 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 269155 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 269094 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 269033 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 268972 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 268911 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 268850 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ========================================================================== ================== 49 29 99.3 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.05, 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //