Array 1 1-515 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXG01000010.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N38864 N38864_contig_10, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 60 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 121 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 182 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 243 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 304 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 365 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 426 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 487 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================ ================== 9 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : CGTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # 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 : 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 [1-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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 1313-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXG01000023.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N38864 N38864_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 1312 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 1251 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 1190 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 1129 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 1068 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 1007 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 946 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 885 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 824 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 763 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 702 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 641 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 580 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 519 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 458 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 397 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 336 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 275 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 214 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 153 29 100.0 34 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGCCGC 90 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================== ================== 22 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : G # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 13381-10322 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXG01000028.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N38864 N38864_contig_28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 13380 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 13319 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 13258 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 13197 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 13136 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 13075 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 13014 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 12953 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 12892 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 12831 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 12770 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 12709 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 12648 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 12587 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 12526 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 12465 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 12404 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 12343 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 12282 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 12221 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 12160 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 12099 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 11996 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 11935 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 11874 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 11813 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 11752 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 11691 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 11630 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 11569 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 11508 29 96.6 32 ....................A........ GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 11447 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 11386 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 11325 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 11264 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 11203 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 11142 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 11081 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 11020 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 10959 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 10898 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 10837 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 10776 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 10715 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 10654 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 10593 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 10532 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 10471 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 10410 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 10349 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ========================================================================== ================== 50 29 99.2 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [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], // Array 1 684-13 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXG01000055.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N38864 N38864_contig_55, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 683 27 93.1 32 --........................... CGCAGACGGCGCAATTGGATTCGGTGATCGGG 624 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 563 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 502 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 441 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 380 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 318 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 257 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 196 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 135 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 74 29 96.6 4 ............................T TGAA Deletion [42] 41 29 100.0 0 ............................. | Deletion [46] ========== ====== ====== ====== ============================= ================================= ================== 12 29 98.9 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTGATCACAGAAC # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.23, 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: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [11.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //