Array 1 433619-434744 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJJ01000001.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain BCW_2029 NODE_1_length_559030_cov_4.81929, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 433619 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 433680 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 433741 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 433802 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 433863 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 433924 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 433985 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 434046 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 434107 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 434168 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 434229 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 434290 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 434351 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 434412 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 434473 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 434534 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 434595 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 434656 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 434717 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAAAAAAAATTGTCGTGTGAGGTAGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [0-7] 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 451002-452665 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJJ01000001.1 Salmonella enterica subsp. enterica serovar 4,[5],12:r:- strain BCW_2029 NODE_1_length_559030_cov_4.81929, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 451002 29 100.0 32 ............................. GGGAAAAATCAATAAAATCAATGATAAGCAGT 451063 29 100.0 32 ............................. GCTGGGTAGTGGAGTAATCATTATGTGTGGTG 451124 29 100.0 32 ............................. CAGTGAGATGCCGCCAATTTGTCAAATAAAAT 451185 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 451252 29 100.0 32 ............................. CCTTTAATCGCCTCTTATCGCCTGGATTGGTT 451313 29 100.0 32 ............................. TTAAATCCATATACGGGCCTTGCGGGTTTGCC 451374 29 100.0 32 ............................. GCGGCTCTGTGTTGGGCGATGGCTCCGGTGGT 451435 29 100.0 32 ............................. GCGCGCCAATAATTTTATTGACGATTTCATCA 451496 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 451557 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 451618 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 451679 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 451740 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 451801 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 451862 29 96.6 32 ......T...................... GTTTGCCGTATCTTCGATCATACCGGAACGGT 451923 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 451984 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 452045 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 452106 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 452209 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 452270 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 452331 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 452392 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 452453 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 452514 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 452575 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 452636 29 96.6 0 A............................ | A [452662] ========== ====== ====== ====== ============================= ========================================================================== ================== 27 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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], //