Array 1 171976-170683 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYWA01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N32056 N32056_contig_14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 171975 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 171914 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 171853 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 171792 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 171731 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 171670 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 171609 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 171548 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 171487 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 171426 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 171364 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 171261 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 171200 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 171139 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 171078 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 171017 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 170956 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 170895 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 170834 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 170773 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 170712 29 96.6 0 A............................ | A [170685] ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGCGGGGATAAACCGCGTCGCGGAAAATTTCGCATTGACGATAAAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.13, 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 [50.0-40.0]%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 1370-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYWA01000085.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N32056 N32056_contig_85, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1369 28 96.6 32 -............................ GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1309 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1248 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 1187 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 1126 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1065 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1004 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 943 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 882 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 821 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 760 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 699 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 638 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 577 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 516 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 454 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 393 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 332 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 271 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 210 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 149 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 88 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //