Array 1 979989-981481 **** Predicted by CRISPRDetect 2.4 *** >NZ_AP023290.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain L-3844 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 979989 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 980050 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 980111 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 980172 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 980233 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 980294 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 980355 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 980416 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 980477 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 980538 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 980599 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 980660 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 980721 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 980782 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 980843 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 980904 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 980966 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 981027 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 981088 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 981149 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 981210 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 981271 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 981332 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 981393 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 981454 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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 997613-999577 **** Predicted by CRISPRDetect 2.4 *** >NZ_AP023290.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain L-3844 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 997613 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 997674 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 997735 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 997796 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 997857 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 997918 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 997979 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 998041 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 998102 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 998163 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 998224 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 998285 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 998346 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 998407 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 998468 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 998529 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 998590 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 998651 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 998712 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 998773 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 998834 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 998896 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 998999 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 999060 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 999121 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 999182 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 999243 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 999304 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 999365 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 999426 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 999487 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 999548 29 96.6 0 A............................ | A [999574] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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], //