Array 1 6833-5390 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBS01000155.1 Mycobacterium tuberculosis strain UMDRTB_109 contig000155, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =========================================== ================== 6832 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 6758 36 100.0 37 .................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGCA 6685 36 100.0 38 .................................... CTTTGCGAAGTCACCTCGCCCACACCGTCGAAGCGCCT 6611 36 100.0 38 .................................... GCGGATGGTGGGCAAGTTGGCGCTGGGGTCTGAGTCAA 6537 36 100.0 41 .................................... CTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACGT 6460 36 100.0 43 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAA 6381 36 100.0 36 .................................... GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGG 6309 36 100.0 38 .................................... TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGT 6235 36 100.0 38 .................................... ACGGAAACGCAGCACCAGCCTGACAATCTTATTCTCGC 6161 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 6088 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 6017 36 100.0 40 .................................... CCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCGG 5941 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 5867 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 5796 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 5724 36 97.2 37 ......G............................. TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 5651 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 5575 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 5499 36 97.2 38 ..................A................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 5425 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== =========================================== ================== 20 36 99.6 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTC # Right flank : TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [38.3-28.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.15 Confidence: HIGH] # Array family : NA // Array 1 1968-1638 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBS01000227.1 Mycobacterium tuberculosis strain UMDRTB_109 contig000227, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ======================================== ================== 1967 37 100.0 33 ..................................... TAGAAGGCGATCACTGGAAGCACGGCGCTTGCG 1897 37 100.0 35 ..................................... TTGGTCAAAAGCTGTCGCCCAAGCATGAGGCAAAA 1825 37 100.0 40 ..................................... ACGACTAGGGGAGCGTGATCCAGAGCCGGCGACCCTCTAT 1748 37 97.3 37 G.................................... GTGCAAGAATTCCGGGTTGCAGTGCAACACGGTTTTA 1674 37 100.0 0 ..................................... | ========== ====== ====== ====== ===================================== ======================================== ================== 5 37 99.5 36 AGTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC # Left flank : TTTTGGGTCTGACGACCCCCTAGCCACGCCTGCCGTGCCATGCCGCGCCGC # Right flank : TCTATGGACAATTCGTCCAGCGTGTGGTAACAATGCCTGCTGATGATGTCAAAAGAACACAAACTCCTCTGCGCTGACAAGCCGTCCCCTTCCGTAGAACGTAACTGCCGCAACACCTCTTATCTTATAGATCCGGATGTTGTCGCAGTCGATGGCGAAGCGGTCGATACGTGCAACTAGTTTCGCGAGCTGGCCCTTCGTCAGCATCGCTTCGAATGCGGACTCTTGGACGCGATAGCCAAACCCGGCCAGGATCTTCGCAAGTGAAGCCCGCCGCCGGTTGTCGCTGATGTCGTATATTACGAGGACGAACATCTTGCCTATAGTGCCGCTGGACTCGTCCACTTTGAGCGGGAGATTGAAGTACTCCTCACGGCTGCGAGTGGGCATTTAGGCTCCGGATGGCTCGGAGGTGATATCGATATCGACGAGCCGCGACGGGTGCCCGGCTTCGATAACACGCACGAGGCTTTGCAGTTGCAAGTCGAGGGCGTACTGAA # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 : AGTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC # 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 [12,3] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-7.70,-8.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [55.0-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,0.78 Confidence: LOW] # Array family : NA // Array 1 54-892 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBS01000281.1 Mycobacterium tuberculosis strain UMDRTB_109 contig000281, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================= ================== 54 36 100.0 35 .................................... ATGTGCGCCGTCGCCGTAAGTGCCCCACGGCCCGT 125 36 100.0 39 .................................... CCATATCGGGGACGGCGACGCTGCGAGAGGACACGCCGA 200 36 100.0 37 .................................... TACACCACGCGTCGTGCCATCAGTCAGCGTCCTCCTC 273 36 100.0 38 .................................... TTGAACACGGAGCCGTGCACATGCCGTGGCTCAGGGGT 347 36 100.0 39 .................................... AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG 422 36 100.0 35 .................................... TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAG 493 36 100.0 37 .................................... ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 566 36 100.0 38 .................................... CTGAGGAGAGCGAGTACTCGGGGCTGCCGTCTGCGCTG 640 36 100.0 37 .................................... GCGTGAAACCGCCCCCAGCCTCGCCGGGGCCGCCTAG 713 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 784 36 100.0 37 .................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCGG 857 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================= ================== 12 36 100.0 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GAGAGGGGACGGAAACTCGCGGCGCGGCATGGCACGGCAGGCGTGGCTAGGGGG # Right flank : CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTCGGTCGTCAGACC # 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [12,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-7.70,-6.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [23.3-23.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.74,0 Confidence: HIGH] # Array family : NA // Array 1 53-815 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBS01000286.1 Mycobacterium tuberculosis strain UMDRTB_109 contig000286, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 53 36 100.0 24 .................................... CTTGAATAACGCGCAGTGAATTTC Deletion [113] 113 36 94.4 36 .CG................................. ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCA A [117] 186 36 100.0 37 .................................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCG 259 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 331 36 100.0 36 .................................... TGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 403 36 100.0 41 .................................... TCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATCAC 480 36 97.2 40 .........................A.......... TCGTCGACGATCGCGTCGATGTCGATGTCCCAATCGTCGA 556 36 100.0 37 .................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAA 629 36 100.0 39 .................................... CCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGT 704 36 100.0 40 .................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGA 780 35 75.0 0 ...................T..-.C.CCC...C.TG | C [804] ========== ====== ====== ====== ==================================== ========================================= ================== 11 36 97.0 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GGGACGGAAACCAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTCGG # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAG # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.03, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [12,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-7.70,-6.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [4-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [23.3-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.15,0.27 Confidence: MEDIUM] # Array family : NA // Array 1 54-595 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBS01000312.1 Mycobacterium tuberculosis strain UMDRTB_109 contig000312, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ====================================== ================== 54 36 100.0 38 .................................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 128 36 100.0 38 .................................... CCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAG 202 36 100.0 36 .................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 274 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 346 36 100.0 37 .................................... TCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCC 419 36 100.0 37 .................................... AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG 492 36 100.0 35 .................................... TCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA 563 33 91.7 0 .................................--- | ========== ====== ====== ====== ==================================== ====================================== ================== 8 36 99.0 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTCAG # 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [12,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-7.70,-6.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [28.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.42,0 Confidence: HIGH] # Array family : NA //