Array 1 60-1552 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIZ01000128.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM172, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 60 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 121 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 182 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 243 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 304 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 365 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 426 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 487 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 548 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 609 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 670 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 731 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 792 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 853 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 914 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 975 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1037 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1098 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1159 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1220 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1281 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1342 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1403 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1464 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1525 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGTG # 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 [68.3-63.3]%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 1 5874-3909 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIZ01000102.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM172, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 5873 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 5812 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 5751 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 5690 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 5629 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 5568 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 5507 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 5445 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 5384 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 5323 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 5262 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 5201 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 5140 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 5079 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 5018 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 4957 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 4896 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 4835 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 4774 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 4713 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 4652 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 4590 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 4487 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 4426 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 4365 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 4304 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 4243 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 4182 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 4121 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 4060 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3999 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3938 29 96.6 0 A............................ | A [3911] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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: 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], //