Array 1 98099-100201 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPER01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SE36N NODE_6_length_181121_cov_62.6518_ID_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98099 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98160 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98221 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98282 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98343 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98404 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98465 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98526 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98587 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98648 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98709 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98770 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98831 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98892 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98953 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99014 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99075 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 99136 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99197 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99258 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99319 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99380 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99441 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99502 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99563 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99624 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99686 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99747 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99808 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99869 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99930 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99991 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 100052 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100113 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100174 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-12] 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 116334-117138 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPER01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SE36N NODE_6_length_181121_cov_62.6518_ID_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 116334 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116395 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116456 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116517 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116578 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116640 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 116701 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [116743] 116743 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116804 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116865 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116926 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 116987 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117048 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117109 29 96.6 0 A............................ | A [117135] ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.11, 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 [71.7-48.3]%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], //