Array 1 853237-854118 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADBEJ010000005.1 Amycolatopsis roodepoortensis strain DSM 46661 Ga0415177_05, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 853237 29 100.0 33 ............................. GGATTGGGCAACTCACGATGCACCCGCACCTGC 853299 29 93.1 32 ....................A.......G GCGCCCGGCTCGCGGGACTCCGATTCCCGGCG 853360 29 100.0 32 ............................. AGCTTGAACAACACGAGAGGAACCCAGACGGA 853421 27 86.2 32 .............AG....--........ GACGCCAAGAGCGACGTGAAGCTGCTCGAATA 853480 29 89.7 32 .............AG.....A........ ATGTACCGCCACAAGAACCGCGCCGTACTTCG 853541 29 89.7 32 ...C.........AG.............. GCGCCGGACAGATTCGCGTTATCCAGGCGGGC 853602 29 82.8 32 ...........A.AG..........A..G CGGGTCTCCGAACTAGCGGAGCATCTGCGAGC A [853608] 853664 29 89.7 32 ...........A.A.......C....... GGGGTCAAAGCCCTCGCGACCGGAAACCCGCT 853725 28 82.8 31 .............AG.....-C......G TACGTCGAGTGCTGTTCGACACCTGAACGTC 853784 29 89.7 32 .....................C..C..T. CTGGACAAGATGTACGCCCGTATGCTTCCAGC 853845 29 72.4 32 A..........A.ATA....AC......G GCTTACCGCTAGCTCGAGCACGAACTCGCCAT 853906 29 86.2 32 ..........T...G........T....G CGGTCGTTGCCGATCCGCAGTATCAGCTCGCC 853967 29 75.9 32 ...A.A...A...A...AT.........G AAGCGGCTGTCGCATACCCGGATACCGTGCGG 854028 29 82.8 32 ........T....AG.....A.......G TCTCACACATCGATGACCGCGACAGCGGGCGC A [854034] 854090 29 82.8 0 .A.......A......T........C..A | ========== ====== ====== ====== ============================= ================================= ================== 15 29 86.9 32 GTCGTCCCCGCGCGAGCGGGGTTGGTCCC # Left flank : GGCCGTCGAACTCCTCAACCGAGCGCTCAAACGCCACCGCACCGAACCCGCCGACCCCATTCACACGAAACCCGGTCTCCTCACGCCAACCCTGGTCATCCCTCCGCTGACACCAGATCAGTCGGACCAGTCATCCAGGCCCACCGCCGAACAACTGATGTGGAACCACTACCAGCACGAACACGCCCAAGGCCGAACACCATCCGGTGCCGAACTCGACCGCGTCGCTGGAACCCACAACTCCGGCCGCCGCAACCTCCGAAAATGGCGCAGCGAAGGCTGCCTTTCGCACACAGCCCTCGAGCCTCATCGAACACGCGAAACACCGTCGAGGCCTCAGACGACGGCACCGCCGAACCCACGTCCGCACACCGACACGACAGAACGAGAACTCGCCGAATCAACATCCTAAGGTTCGATCCGACTCCATGATCAGCGTGAGGACTACCAAACTGAACAAAAACCAGCAGTATGATCTTCAAAGGACCAGGTCAGTTAGT # Right flank : AGACGCGTGGACGATCATGACCACCGCGCACTGCCGGTTACGCCGAAAGAGCTAGTTCACGGCTCCTTCAGACCACGACGCGAAGGGGTGTCCTGCGCATGCAGGGTTGATCCGCTGAGGTGGTCATGGGAATCTCTCACGAGTTCCCCGCGCCGAAGCATTCGGTCGAACGGGAGTGCAAACCGTCGGCGACCGTTCAACTTTCACGCAAGCGGGGTTGGCCCTGCCCAACCGGTGTCCTTGATCGTCCATTTGTAGCTGTCCCCGCATAGGCAGGGTTGACCGCCTTACCAGGAAGCGGTCGAGGACTCCTCGTTGAAGCGCTTCTGCTCTAGCTCCGGGCGGGTGCGAGGCTGAGGAGTCCGCATCCGTAGGCCTTGGCGCGCCCGATTCCGGTGACAAGTGCGTCGCTGAAGGCGGCTGGGTCGGTGATGACGAGGTGGCCGTCGTACCGGACAGGTTCGACGGTGATCTTCCCGGTCTCTGCCTTCCGTCCGGCG # Questionable array : NO Score: 4.83 # Score Detail : 1:0, 2:3, 3:0, 4:0.35, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.22, # 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 : GTCGTCCCCGCGCGAGCGGGGTTGGTCCC # 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 [1,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGTCCCCGCGCGTGCGGGGTTGGTCCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-6.50,-6.30] Score: 0/0.37 # Array degeneracy analysis prediction: F [11-25] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 862134-863370 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADBEJ010000005.1 Amycolatopsis roodepoortensis strain DSM 46661 Ga0415177_05, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =============================================================================================================================================================== ================== 862134 28 75.9 35 ....-...T..A.GA......C...C... CCCGACACGATCGGCCGCTCCGGGTTATCGGCTAT 862197 28 79.3 32 ....-....A....A.....A.C.....A GTCACGACGACCGACGCGGTGTCGCCACCGCT 862257 29 75.9 34 ....CT.......GAC...A....A.... AGCGGGCTGCAGCTCAGCGGCGCCAGCGCGATAC 862320 29 86.2 159 .......T.A.A........A........ ATAGTCGCCTACGCTGAACTGATCGGCCGGGGCATCCCTATACGAGCAGGGCTGGTCCACTGCCAGCTGTTCACTCATCGTGTCGTACGAGCGGTACTAAGGCAAGGACCGGCTAATCTAAGTCGCCAGTATGATCTTCTAACGACCAGATCAATTGAT 862508 29 79.3 32 AC..C...............A...AC... GTCGCAGACCAGCCGATCAGCAGGTCGTAGCC 862569 29 82.8 33 .C..........T.A........AT.... CCCGTCGCTGAGTGCTGCTTCGACGCCGTCGAG 862631 28 72.4 32 CC.T.........GA...A......-..A TACGGTCACCCGCTCTCCGACCCCGAGAGCCA 862691 28 86.2 32 ..T....AT...-................ AGCACCCGTGTGTCCTGGTTGGCGGGAATGGC A [862706] 862752 28 89.7 33 ................-....C......A GGCGGTGGCGCGTCGCAAGCCGGTTCAGCTCGC G [862765] 862814 28 75.9 30 T..-.........GA......C...C..G GTCCTCGCGATGGTGAGGCGTTGACATGGC 862872 29 75.9 33 ..TT.........GA....A.A...C... ATCCCGATCCCGCGCGACGGCCGCGACGCGCCT T [862878] 862935 28 75.9 15 ..TC...T.....GA......C.-..... TGCGGGAGCAAGTGT Deletion [862978] 862978 29 96.6 32 ............................G TTCAGCCGGCCATCACGCAGCGCCACGATTTC 863039 29 100.0 33 ............................. CGGGTCCGGTATTGGGTCGAGCTGATTAACGAT 863101 29 100.0 32 ............................. GGGCCGTTCGGGAAGGTCCCCATCGAGTACAG 863162 29 86.2 32 .............GA......C...C... GAGACCGCCGCACTGGATGACCTTGTCGAGTA 863223 28 75.9 32 ..TC.....-...GA......C......G CTGACGGCAAGCCGTGGCCTGCCGGGATCTGG 863283 29 89.7 30 ..............A......C......G TCGCCGGCGGCCGCGCTCGGCGAACTCGTC 863342 29 96.6 0 ..................A.......... | ========== ====== ====== ====== ============================= =============================================================================================================================================================== ================== 19 29 84.2 38 GTCGTCCCCGCGCAGGCGGGGTTGGTCCC # Left flank : CCCGCCCAGCATGACGTCCACCAACCGCTGGGCAACCGCGGCAGTATCCAACGAATGACAAATCAGCGGATGGCAACCAGCACGCCCCGAAGACTTCCCCCATGGCACAACCGAATCAGGAAAGATCGCACCCAAATCCCCACCTCGCACACCACTCTCTGCGTTACTGCCCCCGACAGGCTGGCCACCTTATCCACACACAAAGAACCCGCGCGAATCCGCCCCAACCTGCGTGAAATACGTGAAAAACCCGATCGCGAACTACGCTTTCAGCTCTTTCGGCCACACCTTACTGAAGATCAAGTGGAGGATCGCGAACGAATCAATACCACCCGATGGCTCGACAGACATACCACAAACCTGAAACAAATTCACATCGCTCCCGGTTTGAGATTGCACCCGCGGCGCCACTGGTGAACAGCGGCCCGGACTTGGAGGCGTCGCTCCTGCACGTTTAGGGTTGGTCTGTTCTCTCGGGTGAACGGCACACGATGTCCGAC # Right flank : CTCGGTGAAGATGCGCCTGACGGCGCGCAACTGGGCGTCCCCGCGCCGGGTTGGTCCGTCGGCGGGTTTGTGAACGATCACGATCTGGATGTCCTCCCTATGCGAGCGGGGTTGGCACCACCTGGTTGATCGCGCCGTCCAGCGGCAGCAGTTCGTCCCGGCGAGAGCAAGGCTTGTTCGCTCTGGCGCATCGACCACGACATCCACGTCCAGCCGTCCCCATGCGAGCGGGCTGGCCCTCAGCACAACTGGATCCGGGTACCCTCGTTAAGTCCTCCCTATGCGAGCGAGGTTGGTCTCGAGACTGCGGCCGCAGGAGATCTCGTCGTGTAGCCAACCCGCACAAGCGGGGCTGGTCCGTATTCCGGAGCACCACGGGGATCCCAACCCCGGTCGTCCCCGCGCGAACGGGGCAGGTCCGTGGTTGATCGCCTTCCAGCCGATCCCGTAGAGAGTCGTCTCCGCGTGAGCGGGGTTGGTCCGACGTCGGCTACCCGGTC # Questionable array : NO Score: 3.91 # Score Detail : 1:0, 2:3, 3:0, 4:0.21, 5:0, 6:0.25, 7:-0.72, 8:1, 9:0.17, # 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 : GTCGTCCCCGCGCAGGCGGGGTTGGTCCC # 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 [1,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGGTCCCCGCGCATGCGGGGTTGGTCCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.20,-12.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [34-20] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [41.7-26.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0.78 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 894868-895505 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADBEJ010000005.1 Amycolatopsis roodepoortensis strain DSM 46661 Ga0415177_05, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 894868 29 100.0 32 ............................. GCCGACCACCTTCGGTCCGGCCACCTTCGCAG 894929 29 100.0 32 ............................. CGGGCCGGATCGAGTGGGGCGAGCGGATCCGC 894990 29 100.0 30 ............................. CCTCGGATCGAGTGGGGCGAGCGGATCCGC 895049 29 96.6 32 ............................G ACGAGGAGGCCGCCGATGCCACCGTCGTCGAC 895110 29 100.0 32 ............................. CCGAGGTCATCGTCCACATAAGCGGTGAACGC 895171 29 96.6 32 ...........G................. TCCGGGCTCGGCGTGATCGGCGGTCTGGTCGC 895232 29 93.1 34 ...........GA................ GCCGTGTCCCCCTCGGTCGGCCAGTGGGCCGGGT 895295 29 79.3 32 TC........TGA...............G GCATGGGCGAGGTCTGGAGCGATCAGACCAAG 895356 29 89.7 32 ...........G...........A....G TCCAATGCGACAACTGAGGTGCGGTCGTCGCT 895417 29 93.1 32 ........T..G................. GGTCTGACGCTGAGCGAGGTCTGGCGGTGGCT 895478 28 75.9 0 ..C..-.....G....AC...T.....T. | ========== ====== ====== ====== ============================= ================================== ================== 11 29 93.1 32 GTTCTCCCCGCACGAGCGGGGCTGGTCCC # Left flank : GTGTGCACTGCGGCCTACACGGTGGTCCAAGAGGATCTCGGCGAGGACGCGATCCGCAACACCGCCACAGCCACGGCGCTAAGCCCGCGTGGCGATGTGCGGTCGGCACCGTCGACCGCGACCGTGCCAACCCCGGAGCCTCCTGGCTCCGAGCCACGGAACCCCGCCCCCGGCCCAGGGCAGGACTCCGCCCCACCCGTGGCGATCGACAGGCCGGCCAAGAGCACGGCACACACCGGCCGCGGCAAGAATGAATCCCTCGCGTCCACAGGTCTTGACGCTTTGCCGATGGCGCTGGCGGCAACGCTCCTGCTTGTGCTGGGCTCCGTCCTCGCGGTGCTCGGACGTCGACGGCGCCGGACGAGCTCGGCGTAACGTGGTTCGAGGGCCACCCTCCGCGGGGTGGCCCTCGAACCACCATGTACAACGGAAGCCGTGAGCGCAGCATTAAAGTGAACCGAAAACACCGTTTCGGCGCCTAACCCTGCAGGTCATGAAGT # Right flank : CCCCGCTGTGCGAGCGGTGGTCGAGGAGTCTCGCCTGTCAGGTGGCAGTTTCAAAACCTTCGTGGGGGCTGTGGCGCGACAAGCGCCTCACGGGCTCGTTCGACATCCTCCGTGGAGACCCAACCCCCGGAAGGGCGACAGAACACCTCACGCCTGCCTTGGACTGTCACCGTCAGCTCTTCGCCGGATTCCACAACGAAATCCGCGAGGTCGTTCCACAACGCGACAAAGGCAGTCCACTCGAGGTCGCGTGTGACGGGCTGCGCGAAGATCGCTTCGTAAGTCCTGCAAACTTGTGTTTCGCAGGCGTGCCGTTCCACGGTCCTTCTCTCTGATGCCGGGTTCGAAGCAGCTACATCCGGCGGCCGTTGATGCGGTAGATCCGCCCGGTCGTCCTCAAGGCACCGATATCCCAGGCTCCCCCGACACCGTCGATCATCCAGGCCACGAAGGCCCACAGGTCGCTCAGCGCTTGCTCCTCGTCCATCGGTTCGAGGCCC # Questionable array : NO Score: 5.52 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.61, # 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 : GTTCTCCCCGCACGAGCGGGGCTGGTCCC # 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 [2,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCTCCCCGCGCGAGCGGGGGTGGTCCG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.10,-13.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [48.3-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0.74 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 4 916317-916823 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADBEJ010000005.1 Amycolatopsis roodepoortensis strain DSM 46661 Ga0415177_05, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================== ===================================== ================== 916317 24 100.0 37 ........................ GCACTTGGACGGGCACTGGCGGTGCACGTGCCAGTTC 916378 24 91.7 35 ...C................G... CACCTTCACGTCCCTCTACCGCCGCTACACGACGT 916437 24 79.2 37 ..TC.C...........T...C.. CTTCGATGCGCTGGGAACAGTGGTCGTGTCCGAAATG C,T [916447,916449] 916500 24 87.5 37 .T.C.A.................. GGTCTTCGACGTCGCCGCCAGCATGGTCAAGCTGCTC 916561 24 83.3 36 ...C..........A.....G.T. ACTCATTCCGCTAACCTCGGCCAAGTACAAGCAGTT 916621 23 79.2 37 C..C.......A..-.....G... GTCGACGAGGTTAACGTCGCCTGCGGTGCCGACGTTC T [916625] 916682 23 87.5 32 ...C.........-......G... CTCCGGACTCTTCACCCGCCACCTGACGGCCT 916737 24 95.8 37 ................A....... GGCCCGGCGCGTCCGGTACGGGCGCGTCACCGAGTTC T,C [916739,916742] 916800 24 87.5 0 ...C.........A......T... | ========== ====== ====== ====== ======================== ===================================== ================== 9 24 88.0 36 TCCTCGCGCGAGCGGGGCTGATCC # Left flank : ACTACGACGATGACCTACCCAACCTCACACCAAGTTCCCTCGTGGACTAGAACATCGCGCTCTCCGTGCCCGCGAGCCCGAGGGAACGAAAGGAGGCATCCAACGCGCGGGACACATCGTCCTGAGCGCCGGCCTCGCTGATGGTTGCGTAGAGGAACGCACCTGGTTTTCGTTCGGGGTCGGCGGGCATCACCATCAATACCCCAGGGTTATTCCCGGCACTGAAGGATAACCCTGCTTTCTCTACGCCAGCGAGAAACTCTTCGGTTGACAGTGCACCCCAGTTTGAAGAGGCGCTAACTTGCCGAATGAGCTGCGACGATTTGCCGAGAATCCCATCGGCCGCGAGCTTGTGGAGATGTGTGCCGGTCGTGGCCCTAGCGTTCACCTCCGTGTACACGACCGCGCCTTGCGCGGTAACCACCGCGTCGACGCGTGGCGGGCGGGACAAGAAGTACTGGAGCTTGCGCGGGTCATTGAGGTACGCCGGGAGTGGGTCC # Right flank : CCCGGTCTGACGCTGCGCGAGGCCTGGCGCTGGCTGTCCTCCCCACGCAAACAGGGTTGGTCTCCCCGCCGGGTGGGCGGTGGTCGACGAGTTCTGCTCCTCGCCCGTCAGGTGGCAGTTTCAAGCCCCTTTGTGACGCTGCGGCGCGACAAGTGCCTGGTGAGCTGGCGGCACCATACCGCCAACTCACCACCGGCTCACCATCCATCGAGATGGCTTAGTCCTCGTCATCCTCGCTCGCGTCCGGCCCTTCCAGCTCGAGAGCCTCAGCCGCTGGGCGGTCCTCTATTAACAGCCGCGGTGTGATGAACTTATCTTGCTGACGTTGCAACGCCGAGCGGCCCAGAATCTGGGTGCGCTCATCGGTTGACAGGGGATACCGCCAGCCCAGGACATCGAACGCCGCTGAAGCCAGGTCACCCAGAAGCACCTTTCTGCCCTCGACCGTCATCGTTTTGAAGTCGAGTTCAAGATCCGACGACTCGTCATCGGACGGACGC # Questionable array : NO Score: 3.53 # Score Detail : 1:0, 2:3, 3:0, 4:0.48, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 9:0.69, # 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 : TCCTCGCGCGAGCGGGGCTGATCC # 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 [2,4] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-1.50,-0.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [35.0-31.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0.37 Confidence: MEDIUM] # Array family : NA //