Array 1 88342-90200 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXTA01000008.1 Salmonella enterica subsp. enterica serovar Copenhagen strain BCW_3401 NODE_8_length_190033_cov_2.50354, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88342 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88403 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88464 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 88525 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 88586 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 88647 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 88708 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 88769 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 88830 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88891 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88952 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 89013 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 89074 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 89135 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 89196 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 89257 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 89318 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 89379 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 89440 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 89501 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 89562 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 89623 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 89685 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 89746 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 89807 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 89868 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 89929 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 89990 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 90051 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 90112 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 90173 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 31 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-12] 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 106333-107809 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXTA01000008.1 Salmonella enterica subsp. enterica serovar Copenhagen strain BCW_3401 NODE_8_length_190033_cov_2.50354, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 106333 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 106394 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 106456 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 106517 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 106578 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 106639 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 106700 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 106761 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 106822 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106883 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106944 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107005 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107066 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 107128 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 107231 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 107292 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 107353 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 107414 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 107475 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 107536 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 107597 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 107658 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 107719 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 107780 29 96.6 0 A............................ | A [107806] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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], //