Array 1 1545-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVPR01000093.1 Salmonella enterica subsp. enterica serovar Typhimurium strain GMR-S-1257 contig_82_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1544 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1483 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1422 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1361 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 1300 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 1239 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1178 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1117 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1056 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 995 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 934 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 873 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 812 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 751 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 690 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 629 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 567 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 506 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 445 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 384 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 323 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 262 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 201 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 140 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 79 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TGAGGCGTACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCG # 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: 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [35.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 160999-160318 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVPR01000043.1 Salmonella enterica subsp. enterica serovar Typhimurium strain GMR-S-1257 contig_37_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 160998 28 96.6 74 -............................ AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 160896 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 160835 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 160774 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 160713 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 160652 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 160591 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160530 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160469 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160408 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160347 29 96.6 0 A............................ | A [160320] ========== ====== ====== ====== ============================= ========================================================================== ================== 11 29 99.1 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.28, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 34-302 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVPR01000090.1 Salmonella enterica subsp. enterica serovar Typhimurium strain GMR-S-1257 contig_79_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 34 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 95 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 156 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 217 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 278 25 86.2 0 .........................---- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 97.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCACCGCGCTGATTAACGACGGACTGTTACAG # Right flank : | # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: NA [4,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-9.80,-9.60] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [25.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.77,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //