Array 1 490002-492999 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUM02000003.1 Salmonella enterica subsp. enterica serovar Senftenberg strain HIY0204 NODE_3_length_620298_cov_31.872406, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 490002 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 490063 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 490124 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 490185 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 490246 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 490307 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 490368 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 490429 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 490490 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 490551 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 490612 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 490673 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 490734 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 490795 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 490856 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 490917 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 490978 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 491039 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 491100 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 491161 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 491222 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 491325 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 491386 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 491447 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 491508 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 491569 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 491630 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 491691 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 491752 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 491813 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 491874 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 491935 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 491996 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 492057 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 492118 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 492179 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 492240 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 492301 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 492362 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 492423 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 492484 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 492545 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 492606 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 492667 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 492728 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 492789 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 492850 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 492911 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 492972 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ========================================================================== ================== 49 29 99.3 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 509545-512015 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUM02000003.1 Salmonella enterica subsp. enterica serovar Senftenberg strain HIY0204 NODE_3_length_620298_cov_31.872406, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 509545 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 509606 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 509667 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 509728 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 509789 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 509850 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 509911 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 509972 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 510033 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 510094 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 510155 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 510216 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 510277 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 510338 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 510399 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 510460 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 510521 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 510582 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 510643 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 510704 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 510765 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 510826 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 510887 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 510948 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 511009 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 511070 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 511131 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 511193 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 511254 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 511315 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 511376 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 511437 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 511498 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 511559 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 511620 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 511681 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 511742 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 511803 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 511864 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 511925 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 511986 29 100.0 0 ............................. | A [512013] ========== ====== ====== ====== ============================= ================================= ================== 41 29 99.8 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], //