Array 1 426-33 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHGW01000165.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SE463 SE463_trimmed_contig_169, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 425 27 89.7 32 --....................G...... TTGTTAAATATAATTGCGGATGTAGGTGGATA 366 29 96.6 32 ..............G.............. ATCACGCGAATGTGTTGGCCTCCCCCGCTGCA 305 29 100.0 32 ............................. GGGGTTATCTGTATGTTACGGAAGTGGATGCG 244 29 96.6 32 ................G............ CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 183 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 122 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 61 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCAGGGCGATATTGTTGTTGGTGAATGGGA # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [28.3-0.0]%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], // Array 1 97488-98980 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHGW01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SE463 SE463_trimmed_contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97488 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 97549 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 97610 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 97671 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 97732 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 97793 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 97854 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 97915 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 97976 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98037 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98098 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 98159 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 98220 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 98281 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 98342 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 98403 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 98465 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 98526 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 98587 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 98648 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 98709 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 98770 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 98831 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 98892 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 98953 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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 115112-117015 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHGW01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SE463 SE463_trimmed_contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 115112 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 115173 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 115234 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 115295 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 115356 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 115417 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 115478 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 115540 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 115601 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 115662 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 115723 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 115784 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 115845 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 115906 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 115967 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 116028 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116089 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116150 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116211 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116272 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116334 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 116437 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116498 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116559 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116620 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 116681 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 116742 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 116803 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 116864 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 116925 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 116986 29 96.6 0 A............................ | A [117012] ========== ====== ====== ====== ============================= ========================================================================== ================== 31 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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], //