Array 1 95967-97276 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHQ01000033.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 95967 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 96028 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 96089 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 96150 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 96211 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 96272 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 96333 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 96394 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 96455 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 96516 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 96577 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 96638 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 96699 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 96761 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 96822 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 96883 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 96944 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 97005 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 97066 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 97127 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 97188 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 97249 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 1 59891-57926 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHQ01000046.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 59890 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 59829 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 59768 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 59707 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 59646 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 59585 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 59524 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 59462 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 59401 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 59340 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 59279 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 59218 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 59157 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 59096 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 59035 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 58974 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 58913 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 58852 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 58791 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 58730 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 58669 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 58607 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 58504 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 58443 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 58382 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 58321 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 58260 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 58199 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 58138 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 58077 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 58016 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 57955 29 96.6 0 A............................ | A [57928] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAG # 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], //