Array 1 421839-424897 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUUX01000001.1 Salmonella enterica strain CFSAN071972 CFSAN071972_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 421839 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 421900 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 421961 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 422022 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 422083 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 422144 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 422205 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 422266 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 422327 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 422388 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 422449 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 422510 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 422571 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 422632 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 422693 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 422754 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 422815 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 422876 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 422937 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 422998 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 423059 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 423120 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 423181 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [423201] Deletion [423221] 423223 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 423284 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 423345 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 423406 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 423467 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 423528 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 423589 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 423650 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 423711 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 423772 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 423833 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 423894 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 423955 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 424016 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 424077 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 424138 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 424199 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 424260 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 424321 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 424382 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 424443 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 424504 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 424565 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 424626 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 424687 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 424748 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 424809 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 424870 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 441443-443791 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUUX01000001.1 Salmonella enterica strain CFSAN071972 CFSAN071972_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 441443 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 441504 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 441565 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 441626 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 441687 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 441748 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 441809 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 441870 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 441931 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 441992 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 442053 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 442114 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 442175 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 442236 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 442297 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 442358 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 442419 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 442480 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 442541 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 442602 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 442663 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 442724 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 442785 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 442846 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 442907 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 442969 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 443030 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 443091 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 443152 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 443213 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 443274 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 443335 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 443396 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 443457 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 443518 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 443579 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 443640 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 443701 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 443762 29 100.0 0 ............................. | A [443789] ========== ====== ====== ====== ============================= ================================= ================== 39 29 99.7 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], //