Array 1 50-448 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01001072.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig1087, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ========================================== ================== 50 28 100.0 32 ............................ ATAACGCCCTTGCCGGTCACCGAGTACGGGTC 110 28 100.0 32 ............................ AGGTGCGCCGCCGGAACGGCGCGCAGCTGCAG 170 28 100.0 42 ............................ ATCTCAAAAAATCTCAAGCCACCAGGACGTGATCGACGTGGC 240 28 100.0 33 ............................ AGCACGATGCGTTCACGCAGATGTTCGTCATCT 301 28 100.0 32 ............................ GGAGAGATCGACGAAGGCGTCGATGTCGGCGA 361 28 100.0 32 ............................ TACCTACCGAAAGAGAAAGAGGTGCGCAATGA 421 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ========================================== ================== 7 28 100.0 34 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : AGTAGGTAGCTCAGAAAGCTCCCATCGTCCCACGGGCCAAGCTGCCCTCG # Right flank : ACATTATTCACTTCGAAATGGGCTGGCTGGTGGGTATTTCGGCGAGCGTGACCGCCCATTTCGGCATCGTGACCGATTTGAGCGCTGGGTCTGGGGTTACGCGGTTGGGATTGTAGAGAGGGGTATGGATTGACTGGTTGATGCCTCCTTGTCGGGTGTTGCAGGTCACGATACCTGAGTATCGTTCGAGTTTTTTCTTGTGTTTTTCTATTTTTTGTGCTTGGACTCTG # 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.00,-1.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [31.7-46.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 215-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000912.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig925, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 214 36 100.0 30 .................................... ACCAGTCGTTGACGCTACGCCGACGTGCGA 148 36 100.0 30 .................................... GATTGCCATGATCCACCAACGTTGCCCGGA 82 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 100.0 30 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : | # Right flank : TTTCGACGCTCGACGCGACAGGTCCTGGGGCGTTCCGGCCAGAGCGC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [7,11] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-3.20,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [21.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [1.05,4.87 Confidence: MEDIUM] # Array family : II-C [Matched known repeat from this family], // Array 1 277-43 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000890.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig903, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 276 36 100.0 30 .................................... CATCAGTGCGTCCCAGTCGCTGATGCCCCC 210 36 100.0 30 .................................... CGGGACGGTGCGCGCGAGCACTACGACGAC 144 36 100.0 30 .................................... CCGCCACGCGGCCGATGGCCGCTTGCGTGA 78 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 4 36 100.0 30 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : CAAAGAAGCGGTAGGCCCCAATGGTGTCGGCCCAATCACCGCAGGCTTGGGGGATACTGGCTGTGGGCTTGGCACTCAAGCTCTCGATCAGATGGATCGCACGCTGTTTGCGCCTGGGGTCCCCCAGGTTCATGCTCTTGAATTCCGTGACTGTCCAACTCATTGTGTGCTTTCGCTATGAAATAAGTAGCATAACTCATGCGAGAGGGACTTGTGTATAACGAGATGGGTTCATCCCGATCAGTGACG # Right flank : TTTCGAGCAGTTGCGCGCGCGGCATGTCCGCGTTCCGGCCAGA # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [7,10] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.50,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [20.0-51.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.55 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 195-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000911.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig924, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 194 28 100.0 32 ............................ AAAAAGGAAATGAAATGAACGCGGCAGAAAAA 134 28 100.0 32 ............................ CGGAAGAAGACGAGATTGTCATGGAGGACTTG 74 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 3 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : CCTTTCGGTTCCAACAGATGTTCATGGGCGCCATCGCCT # Right flank : AACATAAACTCCCTGCACTTGAAGCAATTCATCGTTCACTGCCGAGT # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [41.7-30.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 1-146 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000889.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig902, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 1 17 47.2 27 -------------------................. TGGGGGGGGCCCCCATGGGGGCCATTT 45 36 100.0 30 .................................... GCAGGCCAGCTGTGTGTGGACGCCGCGCAC 111 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 82.4 29 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : | # Right flank : CGCGCTGCGGTTCATCCCATTTCGTTATACACAAGTCCCCTGAACCTGAAGCTCGCGACAGAACCTGATGCCAGCAGCAAAGTCAAGAATGCGTTGCATTCCCAGCCAGATGGTCTTGACTCCGGGCTCACCATCGCACTTTCGCGCAAGAAAGC # Questionable array : NO Score: 4.37 # Score Detail : 1:0, 2:3, 3:0, 4:0.12, 5:0, 6:0.25, 7:-0.09, 8:0.4, 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [10,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.30,-1.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.41 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 46-311 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01001062.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig1076, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 46 28 100.0 32 ............................ AAGCCGACGCACCTGGTGCGTCAGAGAAACGA 106 28 100.0 32 ............................ CGATGAAGCCAGGCCGGGCATGAATCTGATGG 166 28 100.0 32 ............................ GTACCGTAGCTCTGCGTGTACATATTCGACAA 226 28 100.0 32 ............................ CAGCCGCAGCGCTGGATCGCACCTGTAGCACG 286 26 92.9 0 ..........................-- | ========== ====== ====== ====== ============================ ================================ ================== 5 28 98.6 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : GGTAGCTCAGAAAATAATCGTCCATGAGTCTGTGCATGCTTTTCAG # Right flank : | # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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: NA [Repeat is AT rich:51.72%AT] # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.60,-2.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [41.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 1-137 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01001061.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig1075, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 1 16 57.1 33 ------------................ TGCCATACGATCTTCCGGCCGGCCCGTACCAAT 50 28 100.0 32 ............................ TCAATTTCTCGCTTAGTTCCCGATGCTTCCGC 110 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================= ================== 3 28 85.7 33 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : | # Right flank : GGGCGTGGGGCGCCCTGCGGCGCTTTGCAAAAGTTCACTGCCGAGTAGGAAAACCCCTTGAGGGCACCGCGCAAACCG # Questionable array : NO Score: 4.65 # Score Detail : 1:0, 2:3, 3:0, 4:0.29, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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: NA [Repeat is AT rich:55.56%AT] # Reference repeat match prediction: F [matched GTTCGCTGCCGAGTAGGCAGCTCAGAAA with 95% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.41 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 197-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000868.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig881, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 196 27 96.4 32 .........-.................. GCCTGGGCCTCGGTGTGCGTTCCGGCGATGAA 137 28 100.0 32 ............................ ATCGGAGTAAATGCCGGGACCGCCGGCTTCGC 77 28 100.0 32 ............................ GAATCGCACGCGACGATGGCGAAAACAGCCAT 17 17 60.7 0 .................----------- | ========== ====== ====== ====== ============================ ================================ ================== 4 28 89.3 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : TATTCATCA # Right flank : G # Questionable array : NO Score: 5.32 # Score Detail : 1:0, 2:3, 3:0, 4:0.46, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [5,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-13.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.37,4.77 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 316-48 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000851.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig864, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 315 28 100.0 32 ............................ GCGGGCCGGGGCTCGCGCGCAGCCTCCTGCGC 255 28 100.0 32 ............................ TTCTTCGCCGCCCACGCCGCCGCCGCCGCTGA 195 28 100.0 32 ............................ GGGCGAAAAGATCGACGAACTGCTCGTCAAAA 135 28 100.0 32 ............................ TTGAGAGCCTCGGGACACTAGATAGTGTATGT 75 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 5 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : AGGTAGCTCAGAAAAGAAAACTTTTTTTCGTCGCGCCATCGAGAC # Right flank : ACCTCTAGGCCACAAGGCAGCGTAGGCACCAAGGTTCACTGCCGAGTA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [31.7-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 321-53 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01001044.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig1058, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 320 28 100.0 32 ............................ CTTCGCATCAAGGACGGGCCGACCGCTGCCGT 260 28 100.0 32 ............................ TACGGCGACGACACCTGCCGCGCGAACCTGCT 200 28 100.0 32 ............................ AACGGCGGACAGCAGAAAACAACTTTCTCAGC 140 28 100.0 32 ............................ AGGGTAGGCGAACAAAGTGGGCTTGCTGAGCC 80 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 5 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : CCG # Right flank : AGTGTTATGATCTTCATCACTCGCTACAAATGTTTTCACTGCCGAGTAGGTAG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [50.0-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 385-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01001079.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig1094, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 384 29 100.0 32 ............................. GGGTGGCTCTTCGGAGGCATCAATCGAGGTGT 323 29 100.0 32 ............................. TGGCGCGGCGCACAGCATCGAGCACGTCGGCC 262 29 100.0 32 ............................. CGCCAAGCGAAGCGGGAGGTCGGGGATGCCGC 201 29 100.0 32 ............................. TGTCCGGAAAGAAGGGGATGCATAGAATTCCC 140 29 100.0 32 ............................. GTGCGGGATGAGCACAGAATCGTCCCCGGGCG 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 GGTTGCCCCGCGCGAGCGGGGATAGGCCC # Left flank : CGGTGAGTAGTTACAAAAAAACA # Right flank : CAATAAGGTGAAAAATGAGCGATACGATTACTGGGTTGCCCCGCGCGAGCG # Questionable array : NO Score: 3.26 # Score Detail : 1:0, 2:0, 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 : GGTTGCCCCGCGCGAGCGGGGATAGGCCC # 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: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: NA # 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: F [40.0-26.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.37 Confidence: LOW] # Array family : NA // Array 1 49-256 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000690.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig703, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 49 28 100.0 32 ............................ GCGAAAAGATGGTGAAGCAAGGGGGCGGCGCG 109 28 100.0 32 ............................ CGAGCAGTTCAGCACCGCTGGAAGCGTCGGGA 169 28 92.9 32 .....................G..A... GCGACGCAATCGTGGAGCACCTGAAAAACGTC 229 28 85.7 0 ......C.....A....C...C...... | ========== ====== ====== ====== ============================ ================================ ================== 4 28 94.6 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : GTAGGTAGCTCAGAAAGAGGAGCGCGCGAGGCTTGGCTACAGCCAAGTG # Right flank : ATTATCAACAATATTGGCCTCACCGTCATTCCCCATCTGCGATGCCTCCTTTTATTCGCTCCTGAATTGCCAATATCGGCGAAAAATCCGTTCGTAGCCTGCCAAAGGTGAACACCGGTATAACCGACTTACGTATCGGATTGCCTTTCGAAAAAGAAGCCGTCAGGCAGGATGGCCGGAGCGATGTAGTCGATGTCCTTGGCCGACACGCCGCAGGCAAGGAAGCCGTCGCGCCAATGCCGGACGACATTGACGAGTTGATCGATTTGCCCGCGCGCCTCTTGCGCTGACAAACCGAAACGCCCTGCCTGCGACAGGAGGTTGTAGATGCTGGCGGTGCGACCGTAGTCGCCGATGGTCAGGGCCAGGTCGCGCCGCTCCAGGCTGAGCACGGGTGCGGGCACGAGGTCGTAGGCCGGAGACAGCCGCCATCCCTTCTGCCTGCGCAGCAGGGCGTGGTTGCGCGGATGGTCATCGTTGTTGGTCACGGCGGCATTGAA # Questionable array : NO Score: 5.59 # Score Detail : 1:0, 2:3, 3:0, 4:0.73, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.00,-1.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-53.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 338-8 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000561.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig567, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 337 28 100.0 32 ............................ TGGAACGCATCGAACAATTGGGACATGCAGAA 277 28 100.0 32 ............................ ACAAACCACGCCGCCTTCCACGCCGCCTTCGC 217 28 100.0 32 ............................ GAAGACACCAGGAAGAAATTCAAGGACAACGA 157 28 100.0 32 ............................ AGGGGTAGCGCTGCTCGACCCGCTTGTCGAGC 97 28 100.0 32 ............................ ATCGCCCGGGGTGTAGGTATCGACCAGGCCGA 37 28 78.6 0 ..................G...G.CTTC | G,T [11,14] ========== ====== ====== ====== ============================ ================================ ================== 6 28 96.4 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : | # Right flank : CGGGGTGG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [38.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 49-436 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000553.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig559, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 49 28 100.0 33 ............................ CGAGTCGCCCCTGTTTGCCCGCGTGGTGGACCC 110 28 100.0 32 ............................ TTGAACTGGGGGCAATGGGCAGCGCAAAGATC 170 28 100.0 33 ............................ GATCAGGCTTTGAAAGCCCCTGACCTTTTCGGC 231 28 100.0 32 ............................ AGCACCGGCACCGGATGCGCCCCATGATCGCC 291 28 100.0 32 ............................ ATTCAAGCTCCCGCCTGCGCTTGTCTGCGAAC 351 28 100.0 32 ............................ AACGGGAATCGTGAGGTACGTTTTGTAGTTGA 411 26 92.9 0 ..........................-- | ========== ====== ====== ====== ============================ ================================= ================== 7 28 99.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : GTAGGTAGCTCAGAAAAGTGATAGCCTTGCTTTGGGTGCGCTCACACCG # Right flank : | # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.60,-2.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [38.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 137-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000498.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig504, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 136 28 100.0 32 ............................ TAGCCCCGAGGTCATCATCGCAATGACAGTCG 76 28 100.0 33 ............................ AAGTGTCGAAAGCATCCCTGTCCGACATGTGCT 15 15 53.6 0 ...............------------- | ========== ====== ====== ====== ============================ ================================= ================== 3 28 84.5 33 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : TGCGCTGCAACGCCTGCAGGCACTGCCCTGGTTGCAGGGGATGCGTGACCATGTGCAGGCGAGCGAAGCCGTATCCGTTCCCGCACACACACAGCACCGTACCGTGCGCCGCGTACAGGCCAAGAGCAACCCCGAGCTTCTGCGCCGGCGCCAAATGCGCCGCCACGGGATTGACAGCGCAGAGGCCCTCCTGCGAATTCCGGATCAAGAGGGCCAGCGATTGGCGTTGCCCTATCTGAGCTTGCACAGTGCCAGCTCAGGGCAAGCCTTCCACCTGTTTATCGACCATGGAGCCTTGATGAACACGCCATCCCCGGGCAGCTTTAGCACCTACGGACTCAGCACACAATCCACGATCCCGTGGTTTTGACCCTTTTTTTGTGACCAAGTCATTTCTTCAATAAAATCAACGACTTACGTGTCAGCCTCAAAAATAGGGGAGTCTTGCGAGATATCTATTTTTCCTTTGGATATCAATAGGTTATGGATGTTTTTATCCT # Right flank : A # Questionable array : NO Score: 4.59 # Score Detail : 1:0, 2:3, 3:0, 4:0.23, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 58-225 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000507.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig513, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 58 36 100.0 30 .................................... GCAGGGCTTGTGTGTGTGCAAAGAACCGGC 124 36 100.0 30 .................................... GGAGTAGTCATGCGAGCGACAGTTTCGGTA 190 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 100.0 30 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : AGAGCGCATATCCCAGTAAGCTAGAATTACCGGCACTGACGCCCCGACACGCGTCTTG # Right flank : TGCCACCGCGCTAACCCCTTGATTTTTAAGGAAAATTTCGTTCTCAGACGGCAAAAAATTCGCGCCATGGTCTAGAAAAGATCGAACTGCTCTGGTGCTTTTTGCGCGGGTTGCTTGCTGCGCCCGCGGTAGGTGATGGCACGCTCGTACTGCTTGTCGGTGAACTGGAGGACATGGACCTTACCACCAGAAGGCAGTGCGTGCTCCACTGCGCGGCACAGGGTATCCACCTGGGTCTGGCTGGTGCAGAACCGCATGTACACGCTGAACTGGCTCATTGCAAAGCCCATGTCGAGCAACGTGTTGCGAAACTGTGTCGCTGCCTTGCGTTCGGCTCTCTCTACCACCGGCAAGTCGAACATCACCACCATCCACATGAGTCGGTACCCGGACAACATGGTGTGGCAGGCAAGGTGATCAATCGGGCTCGAAGCCGCCCGCCAGCGCGAGTGGCAGTCCCGGCAAGGGCAAGTCCAGCTTGGGGCGGTCGCCGAGGTACA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [10,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.60,-1.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [41.7-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.27 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 677-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000329.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig330, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 676 36 100.0 30 .................................... AAAAAAGCGTCATGCTGCCGCTTGTCTATC 610 36 100.0 30 .................................... TGTACCTGCGTCTTCGAGGCCAGTGGCATT 544 36 100.0 30 .................................... AGGCCGTTGAGTCGGCCAAGCCCCGCGAGA 478 36 100.0 30 .................................... GCCGCTCGGCAAAATGACAATCGATTTCGG 412 36 100.0 30 .................................... TCTGCGACGCAGCAGGAGGCGCGCGAAATA 346 36 100.0 30 .................................... AGCCTTCCTCTGATCAAGCAGATCACTGTA 280 36 100.0 30 .................................... GGCAGCGGCGCTTCTGATGAAGTACGGATA 214 36 100.0 30 .................................... GCGGCGCATTCGGATTTGGAGGTGCGGGAT 148 36 100.0 30 .................................... GATCCTGGAGAGCGTTTGCGCGTGCTCATT 82 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 10 36 100.0 30 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : CCAGTAAGCTAGAATCTTTTCGGCCATCACCTCGGCAGCTTGGA # Right flank : TGAAATTACTCCGCGGCCGCTGCGTAGATGAGTTCCGGCCAGAGCGC # 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [7,10] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.50,-1.30] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [28.3-35.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 48-196 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000339.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig341, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 48 28 100.0 33 ............................ CGAGGTGGCGCTGATTGATGCCGACGGGCAAGT 109 28 100.0 32 ............................ GATTCGGGCATTTGTGTATGCTCGCGCCAGAT 169 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================= ================== 3 28 100.0 33 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : TAGGTAGCTCAGAAAAGCTCGCGCATGAGCATGGGCTACACCGTCAAG # Right flank : GAGCTGGTCTCTGCAAAGTCGCCCTGCTCGGTGTTCACTGCCGAGTAGG # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.00,-1.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [36.7-31.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 48-374 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000320.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig321, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 48 28 100.0 32 ............................ TGCGTGATCGAGTGGAAGTTCACTGCGACCGA 108 28 100.0 32 ............................ TTTTCAAAAAGGCCAAATCGGTTTCATAGACC 168 28 100.0 31 ............................ GAGAACAATCGGCACCCGACTCGCGTCGGTC 227 28 100.0 32 ............................ AACGACTGCGCCGTGATGCCGCCGCCGGATTT 287 28 100.0 32 ............................ TTAGCCGCGAGAGCGTTTTTGTGTGCCGAAAT 347 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 6 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : TAGGTAGCTCAGAAAAACCGCGATCCCGGCGGCCACGTGCAGCAACCG # Right flank : TTGTCCCGAAACCGATAGTGGCTCACATCTGCGTTCACTGCCGAGTAGG # 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.00,-1.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [30.0-36.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 45-544 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000319.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig320, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ================================ ================== 45 36 100.0 30 .................................... GCGCATCCATTCGATCCAGTCGTCCCAGTA 111 36 100.0 30 .................................... GCGAACTGCAATGATCGAAACCCTGCTCGG 177 36 100.0 30 .................................... GTGCGGCAACCGCAGCTTCATGCGCTCAGG 243 36 100.0 32 .................................... CTTTGGTCTGACTCCGACCCGACCCCGCCGGG 311 36 100.0 30 .................................... CGGGCGAGCCGGTGGCCAAGGGACGCGCCA 377 36 100.0 30 .................................... CCGCGTTTTGATCATGCACAGGTCGAGGAA 443 36 100.0 30 .................................... CCTTGGCGTCAAGGCCAGTTCAGTTGCGCG 509 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ================================ ================== 8 36 100.0 30 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : CAGTAAGCTAGAATCGGGAACCGGATCGGGTTCAGGATCGGGCTG # Right flank : GTATTCGGTGCCGACGCGCAGCTCATCAAGGTTCCGGCCAGAGCGCA # 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [10,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.30,-1.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [31.7-28.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 317-49 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000312.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig313, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 316 28 100.0 32 ............................ ACTCCAAAAAACTTTTTTCGTCGCGCCACCGA 256 28 100.0 32 ............................ TGCTCGGGCGGTCTCCCTTGCTACTACGTCGC 196 28 100.0 32 ............................ CAGGGACATTCCGGCCCTGCCGTTTCCGCAAG 136 28 100.0 32 ............................ AGTTAACGCCAGGGTCGGGCTGCGACACACGT 76 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 5 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : GTAGGTAGCTCAGAAATTCCACGCCTCCAACGCCGCCTTCGCCGCAT # Right flank : AAACGGAAAACTCCCCGTGCTGGCGCGCACGATGTTCACTGCCGAGTAG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [31.7-31.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 196-48 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000306.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig307, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 195 28 100.0 32 ............................ GCCGCCTTCACCGCCGCCGCCTCCGTATCCCA 135 28 100.0 32 ............................ CATCCGCCTCCACCCTCTCCGCCGCCTCCCGC 75 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 3 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : GTAGGTAGCTCAGAAAACGAACATAACCCTCCGGCCCAAACGCCGTC # Right flank : ATTTTGATCAACTCCGGCTGCCCGTGCAGCGGCGTTCACTGCCGAGTA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [6,8] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-1.80,-6.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [31.7-36.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 566-49 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000308.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig309, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 565 29 100.0 32 ............................. GTATCTGGCCTCGATCGCGGCCTTTGCCTGGG 504 29 100.0 32 ............................. CCAGGGCGCTGGCGTACTGGCCGGATTTGAGA 443 29 100.0 32 ............................. TCGGTTGGGTCAGTGCCATTCCGATTCGAGGG 382 29 96.6 32 ............................G CGCAAGGGAAAGACCTTCAAAAGCTTCATCCA 321 29 100.0 32 ............................. CTGGGGCTGATCCACCGAGACAGCGAGGTCAT 260 29 93.1 32 ..............C.............G TTGTCTTCCAGCATGTCGGCGAGCATTGCCTC 199 29 96.6 32 .................A........... TGGATGCAGCCGGCCATAACCCCACGCTGGCG 138 29 100.0 32 ............................. AACTACCTGCGAAACGTCGCACCACAAGCCCG 77 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 98.5 32 GGTTGCCCCGCGCGAGCGGGGATAGGCCC # Left flank : CGAGCGGGGATAGGCCCCGAAGCGGGTGTGCCGCCAGGTGCGCCGCCG # Right flank : CAAAGAGTTCGTCGAGGTCACCGGGACGGGCCGGGTTGCCCCGCGCGAG # Questionable array : NO Score: 3.19 # Score Detail : 1:0, 2:0, 3:0, 4:0.93, 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 : GGTTGCCCCGCGCGAGCGGGGATAGGCCC # 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: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [23.3-16.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.37 Confidence: MEDIUM] # Array family : NA // Array 1 48-375 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000305.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig306, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 48 28 100.0 32 ............................ ATTGAAAAGGGGTGATTTATGAGCACAGTATC 108 28 100.0 32 ............................ GGCATGACGCTGAAAAAGCTGGCGAGCATGAC 168 28 100.0 32 ............................ CACTCGACGCCGGATTTTGTGCAACGCTGGGG 228 28 100.0 32 ............................ AAGTCGGTGCGCTGCGCCCAGCGATCAAGCGC 288 28 100.0 32 ............................ CGATACGCCGGGAGGCTGGTCCTCGCCCACCA 348 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================ ================== 6 28 100.0 32 GTTCACTGCCGAGTAGGTAGCTCAGAAA # Left flank : TAGGTAGCTCAGAAAAGCTACCGCGATGGCGTGGCCAAGTTCGGGGCG # Right flank : CAGACCACGTCCGCCACGTCTTCCTCAAAGACGTTCACTGCCGAGTAG # 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 : GTTCACTGCCGAGTAGGTAGCTCAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGAGTAGGCAGCTCAGAAA with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-6.00,-1.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [31.7-33.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 1 47-214 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000303.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig304, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 47 36 100.0 30 .................................... ACATGCACAAGCCCGATCCGAAGCCGGATA 113 36 100.0 30 .................................... TGCCGCAGCCTGCGGGGCCTGTCAGGGCAA 179 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 100.0 30 GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # Left flank : CCCAGTAAGCTAGAATGAATTTGTGATTGGCCGGCTCGAGGCGGCGG # Right flank : TGTGCCCGGACGGTCAGCCCCGGCACGAGCGTTCCGGCCAGAGCGC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCCGGCCAGAGCGCATATCCCAGTAAGCTAGAAT # 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 [10,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.30,-1.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [33.3-18.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 58-225 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000296.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig297, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 58 36 100.0 30 .................................... AGAACAACTACATGCTCAACTTGGGCGCCG 124 36 100.0 30 .................................... CATTGATCTCTGCGCGCTTTGCTGCCTTGA 190 36 97.2 0 ..........................A......... | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 99.1 30 GTTCCGGCCAGAGCGCATATCCCAGTGAGCTAGAAT # Left flank : CACGAAACGACGAAGGGCCGCTAGAATAGTACGGGTTTTGGGCGTCGCCATCGAACAG # Right flank : TGCCTGGGCAGGCATCCTGGACGCGGCGAAGTTCCGGCCAGAGCGC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTTCCGGCCAGAGCGCATATCCCAGTGAGCTAGAAT # 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 [9,7] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCCGGCCAGTGCGCATATCCCAGTGATCTAGAAT with 95% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-4.40,-2.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [41.7-21.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 925-1075 **** Predicted by CRISPRDetect 2.4 *** >NZ_AFAL01000127.1 Verminephrobacter aporrectodeae subsp. tuberculatae At4 Contig128, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 925 29 100.0 32 ............................. AATGGGGATGCGGTCGCAAGCACTGCTTTTGC 986 29 100.0 32 ............................. GTGGTCAAGGGGTTCAGGTACTTTGTAATGGT 1047 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GGTTGCCCCGCGCGAGCGGGGATAGGCCC # Left flank : CAGCAGGTGGGCGACACCATCGACAAGCTGGTGCGGCGTGAAGCGACTGCGGTGTTTCGCAAGCAACAACTCATTGGCGCAATGATCGACCGCATCAAGCAGGTGTTGCGCATGGACGAGGCAAGCCATGGCGCTGGTGATGATCGTGATGCGTGACCTGCCCGACCGCTTCCACGGCTTTCTGTCGTCGGTCATGCTGGAAGTGGCGCCCAACGTATTCGTCTCGCCCCGCATGAACCCCGGCGTGCGTACGCGCGTATGGGACGTGATGAGCGACTGGCACCGGCACGAGAACCAGGGCAGCCTGGTCATGGTGTGGCGCGACCTGAACGCCGTAGGCGAAGTGGGAGTGGCCCATCTGGGCACCCCGGCACGCGAACTGCTTGAGGCCGATGGCATGTGGTTGGTCAGGCGACGCGCGGCGTCGCCTGGAAATGCTCCTTAAAAATTTGGATCGATTTGCTGGTTTTCTCTTATGTGACATGGGTTTACATACGAGA # Right flank : GAGCGGTTTGTTGGCGTCGGGATCATCGTCGAGGTTGCCCCGCGCGAGC # Questionable array : NO Score: 2.67 # Score Detail : 1:0, 2:0, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GGTTGCCCCGCGCGAGCGGGGATAGGCCC # 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: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [65.0-26.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.64,0 Confidence: HIGH] # Array family : NA //