Array 1 80897-83669 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWRC01000021.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024720 CFSAN024720_contig0020, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 80897 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 80958 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 81019 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 81080 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 81141 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 81202 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 81263 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 81324 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 81385 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 81446 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 81507 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 81568 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 81629 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 81690 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 81751 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 81812 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 81873 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 81934 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 81995 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 82056 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 82117 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 82178 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 82239 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 82300 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 82361 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 82422 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 82483 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 82544 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 82605 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 82666 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 82727 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 82788 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 82849 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 82910 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 82971 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 83032 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 83093 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 83154 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 83215 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 83276 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 83337 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 83398 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 83459 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 83520 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 83581 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 83642 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 46 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [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 1 140642-138232 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWRC01000031.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024720 CFSAN024720_contig0030, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 140641 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 140580 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 140519 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 140458 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 140397 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 140336 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 140275 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 140214 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 140153 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 140092 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 140031 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 139970 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 139909 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 139848 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 139787 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 139726 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 139665 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 139604 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 139543 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 139482 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 139421 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 139360 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 139299 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 139238 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 139177 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 139116 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 139055 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 138993 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 138932 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 138871 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 138810 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 138749 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 138688 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 138627 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 138566 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 138505 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 138444 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 138383 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 138322 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 138261 29 100.0 0 ............................. | A [138234] ========== ====== ====== ====== ============================= ================================= ================== 40 29 99.7 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], //