Array 1 1641-515 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXDE01000004.1 Salmonella enterica subsp. enterica serovar 4,12:r:- strain SAL3271 NODE_4_length_198587_cov_3.71583, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1640 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 1579 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 1518 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 1457 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1396 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1335 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1274 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 1213 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 1152 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1091 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1030 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 969 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 908 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 847 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 786 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 725 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 664 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 603 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 542 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], // Array 1 107897-106233 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXDE01000015.1 Salmonella enterica subsp. enterica serovar 4,12:r:- strain SAL3271 NODE_15_length_123683_cov_3.80844, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107896 29 100.0 32 ............................. GGGAAAAATCAATAAAATCAATGATAAGCAGT 107835 29 100.0 32 ............................. GCTGGGTAGTGGAGTAATCATTATGTGTGGTG 107774 29 100.0 32 ............................. CAGTGAGATGCCGCCAATTTGTCAAATAAAAT 107713 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 107646 29 100.0 32 ............................. CCTTTAATCGCCTCTTATCGCCTGGATTGGTT 107585 29 100.0 32 ............................. TTAAATCCATATACGGGCCTTGCGGGTTTGCC 107524 29 100.0 32 ............................. GCGGCTCTGTGTTGGGCGATGGCTCCGGTGGT 107463 29 100.0 32 ............................. GCGCGCCAATAATTTTATTGACGATTTCATCA 107402 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107341 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107280 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107219 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107158 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107097 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107036 29 96.6 32 ......T...................... GTTTGCCGTATCTTCGATCATACCGGAACGGT 106975 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106914 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106853 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106792 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106689 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106628 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106567 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106506 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106445 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106384 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106323 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106262 29 96.6 0 A............................ | A [106235] ========== ====== ====== ====== ============================= ========================================================================== ================== 27 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.09, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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], //