Array 1 9081-12139 **** Predicted by CRISPRDetect 2.4 *** >NZ_NITT01000043.1 Salmonella enterica subsp. enterica serovar Senftenberg strain LASS Contig_42, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 9081 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 9142 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 9203 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 9264 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 9325 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 9386 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 9447 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 9508 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 9569 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 9630 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 9691 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 9752 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 9813 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 9874 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 9935 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 9996 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 10057 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 10118 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 10179 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 10240 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 10301 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 10362 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 10465 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 10526 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 10587 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 10648 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 10709 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 10770 29 96.6 32 .............T............... TACCGTTTTTACTCCCCCGCATTTGGTTACAC 10831 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 10892 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 10953 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 11014 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 11075 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 11136 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 11197 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 11258 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 11319 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 11380 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 11441 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 11502 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 11563 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 11624 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 11685 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 11746 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 11807 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 11868 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 11929 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 11990 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 12051 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 12112 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ========================================================================== ================== 50 29 99.2 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 28685-30910 **** Predicted by CRISPRDetect 2.4 *** >NZ_NITT01000043.1 Salmonella enterica subsp. enterica serovar Senftenberg strain LASS Contig_42, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28685 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 28746 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 28807 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 28868 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 28929 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 28990 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 29051 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 29112 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 29173 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 29234 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 29295 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 29356 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 29417 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 29478 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 29539 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 29600 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 29661 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 29722 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 29783 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 29844 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 29905 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 29966 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 30027 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 30088 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 30149 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 30210 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 30271 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 30332 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 30393 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 30454 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 30515 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 30576 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 30637 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 30698 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 30759 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 30820 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 30881 29 100.0 0 ............................. | A [30908] ========== ====== ====== ====== ============================= ================================ ================== 37 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 [0-3] 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], //