Array 1 412-17 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDLC01000019.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 411 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 350 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 289 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 228 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 167 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 45 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCGCGGGGAACACTCTTTTGATTTTGCTGCGATGTTATAACCAGACGGTTTATCCCCGCTGGCGCGGGGAACACTATCCACATATACCCGCAATCATATTCAAGAACGGTTTATCCCCGCTGGCGCGGGGAACACAATCACTGCGGGGGTATTTAGCGGAAACGGCTCGGTTTATCCCCGCTGGCGCGGGGAACACGATCGAGTAACGTGCGCTGGAACGCGTCGGCGCGGGGAACACAATTAAAGCCGAGGGTGGCACCGCGCCTTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGCACCTCGAAACGGTTTTAAAACACTACCGTTTCGGTTTATCCCCGCGCCAGCGGGGATAAACCGAAACGGTAGTGTTTTAAAACCGTTTCGAGGTGCGTGTTCCCCGCGCCAGCGGGGKTAAACCGAATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC # Right flank : GTGACGAGGTGCGAGCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [8.3-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 550-1293 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDLC01000019.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM28, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 550 28 89.7 33 ..T.........G.-.............. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC A,T [554,562] 613 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 716 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 777 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 838 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 899 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 960 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1021 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1082 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1143 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1204 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1265 29 89.7 0 A..........................AC | ========== ====== ====== ====== ============================= ========================================================================== ================== 12 29 98.0 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTACTGCTTAGTTAATTAATGGGTTGCCGGTTTATCCCCGCTGGCGCGGGGAACACAGGCGAATAATCTCTAATAGTCTCAATTCGTTCGGTTTATCCCCGCTGGCGCGGGGAACACTAAATCTGGCGTCGAGACATTCGAAATAGTGCCGGTTTATCCCCGCTGGCGCGGGGAACACTCTTTTGATTTTGCTGCGATGTTATAACCAGACGGTTTATCCCCGCTGGCGCGGGGAACACTATCCACATATACCCGCAATCATATTCAAGAACGGTTTATCCCCGCTGGCGCGGGGAACACAATCACTGCGGGGGTATTTAGCGGAAACGGCTCGGTTTATCCCCGCTGGCGCGGGGAACACGATCGAGTAACGTGCGCTGGAACGCGTCGGCGCGGGGAACACAATTAAAGCCGAGGGTGGCACCGCGCCTTATTCGGTTTAKCCCCGCTGGCGCGGGGAACACGCACCTCGAAACGGTTTTAAAACACTACCGTTTCG # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 5.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.25, 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: R [5-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-48.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1588-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDLC01000063.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1587 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1526 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1465 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1404 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1343 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1282 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1221 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1159 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1098 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1037 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 976 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 915 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 854 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 793 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 732 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 671 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 610 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 549 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 488 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 427 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 366 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 304 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 201 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 140 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ========================================================================== ================== 25 29 99.7 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTCTGGTTATAACATCGCAGCAAAATCAAAAGAGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.10, 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [41.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 19212-17719 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDLC01000063.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 19211 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 19150 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 19089 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 19028 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 18967 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 18906 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 18845 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 18784 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 18723 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 18662 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 18601 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 18540 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 18479 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 18418 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 18357 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 18296 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 18234 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 18173 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 18112 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 18051 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 17990 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 17929 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 17868 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 17807 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 17746 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [9-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //