Array 1 130-754 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBR01000127.1 Mycobacterium tuberculosis strain UMDRTB_108 contig000127, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 130 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 201 36 100.0 40 .................................... CCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCGG 277 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 348 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 420 36 97.2 37 ......G............................. TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 493 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 569 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 645 36 97.2 38 ..................A................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 719 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================== ================== 9 36 99.1 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GAGGCTGCCTACTACGCTCAACGCCAGAGACCAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTTCAGAAACATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAGG # Right flank : CTACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGA # 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-38.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.15,0 Confidence: HIGH] # Array family : NA // Array 1 1967-1637 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBR01000236.1 Mycobacterium tuberculosis strain UMDRTB_108 contig000236, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ======================================== ================== 1966 37 100.0 33 ..................................... TAGAAGGCGATCACTGGAAGCACGGCGCTTGCG 1896 37 100.0 35 ..................................... TTGGTCAAAAGCTGTCGCCCAAGCATGAGGCAAAA 1824 37 100.0 40 ..................................... ACGACTAGGGGAGCGTGATCCAGAGCCGGCGACCCTCTAT 1747 37 97.3 37 G.................................... GTGCAAGAATTCCGGGTTGCAGTGCAACACGGTTTTA 1673 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 54-2068 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBR01000233.1 Mycobacterium tuberculosis strain UMDRTB_108 contig000233, 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 36 .................................... ATTTCGACGACAATTCGTTGACCACGAATTTTCAGA 197 36 100.0 39 .................................... ACATCCCACGCGTTACCGCTGGCGCGCATCATTCATCGA 272 36 100.0 39 .................................... CCATATCGGGGACGGCGACGCTGCGAGAGGACACGCCGA 347 36 100.0 37 .................................... TACACCACGCGTCGTGCCATCAGTCAGCGTCCTCCTC 420 36 100.0 38 .................................... TTGAACACGGAGCCGTGCACATGCCGTGGCTCAGGGGT 494 36 100.0 39 .................................... AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG 569 36 100.0 35 .................................... TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAG 640 36 100.0 37 .................................... ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 713 36 100.0 38 .................................... CTGAGGAGAGCGAGTACTCGGGGCTGCCGTCTGCGCTG 787 36 100.0 37 .................................... GCGTGAAACCGCCCCCAGCCTCGCCGGGGCCGCCTAG 860 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 931 36 100.0 37 .................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCGG 1004 36 100.0 41 .................................... CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTCG 1081 36 100.0 40 .................................... ATGGGATATCTGCTGCCCGCCCGGGGAGATGCTGTCCGAG 1157 36 100.0 36 .................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACGT 1229 36 100.0 41 .................................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGG 1306 36 100.0 24 .................................... CTTGAATAACGCGCAGTGAATTTC Deletion [1366] 1366 36 94.4 36 .CG................................. ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCA A [1370] 1439 36 100.0 37 .................................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCG 1512 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 1584 36 100.0 36 .................................... TGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 1656 36 100.0 41 .................................... TCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATCAC 1733 36 97.2 40 .........................A.......... TCGTCGACGATCGCGTCGATGTCGATGTCCCAATCGTCGA 1809 36 100.0 37 .................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAA 1882 36 100.0 39 .................................... CCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGT 1957 36 100.0 40 .................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGA 2033 35 75.0 0 ...................T..-.C.CCC...C.TG | C [2057] ========== ====== ====== ====== ==================================== ========================================= ================== 28 36 98.8 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GAGAGGGGACGGAAACTCGCGGCGCGGCATGGCACGGCAGGCGTGGCTAGGGGG # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-15] 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 1 793-86 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBR01000287.1 Mycobacterium tuberculosis strain UMDRTB_108 contig000287, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =========================================== ================== 792 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 718 36 100.0 37 .................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGCA 645 36 100.0 38 .................................... CTTTGCGAAGTCACCTCGCCCACACCGTCGAAGCGCCT 571 36 100.0 38 .................................... GCGGATGGTGGGCAAGTTGGCGCTGGGGTCTGAGTCAA 497 36 100.0 41 .................................... CTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACGT 420 36 100.0 43 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAA 341 36 100.0 36 .................................... GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGG 269 36 100.0 38 .................................... TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGT 195 36 100.0 38 .................................... ACGGAAACGCAGCACCAGCCTGACAATCTTATTCTCGC 121 36 94.4 0 ..................................TG | ========== ====== ====== ====== ==================================== =========================================== ================== 10 36 99.4 39 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTC # Right flank : GAACCGCCCCGGCATGTCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [40.0-28.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,1.15 Confidence: MEDIUM] # Array family : NA // Array 1 54-595 **** Predicted by CRISPRDetect 2.4 *** >NZ_LTBR01000306.1 Mycobacterium tuberculosis strain UMDRTB_108 contig000306, 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 //