New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1978503 =	NA (NA)	25 (0.850)	22/290	0.4	96.2%	intergenic (‑306/+15)	flhD/insB1	flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B
	?	NC_000913_3_pae_tpiA	= 2490627	1 (0.030)					coding (1324/1695 nt)	oxc	oxalyl CoA decarboxylase, ThDP‑dependent

AATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/1978650‑1978503 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGAGACGGTGTTGATCTCAGTGGCGCTGG  <  NC_000913_3_pae_tpiA/2490627‑2490485                                                                                                                                                                                                                                                                                                     AATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCG                                                                                                                                                >  1:312223/1‑149          GCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTG                                                                                                                                       >  1:264075/1‑149                        TGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCCACGGGCACTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCT                                                                                                                         <  1:72510/149‑1                               GCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTT                                                                                                                  <  2:271364/149‑1                                     GGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTG                                                                                                            <  1:71198/149‑1                                       CACGGCTGGGACGGAAGTCGCTGTCGTTATCAAAATCTGTGGAGCTGCATGACAAAGTTATCGTTCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGG                                                                                                          <  2:363812/149‑1                                             TGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAA                                                                                                    <  2:394603/149‑1                                               GGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAAT                                                                                                  <  1:308015/149‑1                                                          GCTGTCGCTCCCAAAATCGGTCGAGCCGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTT                                                                                       <  1:106715/149‑1                                                               gGTTCTCGAAATCGGTGGGGCTCGATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGA                                                                                  <  1:62440/148‑1                                                               CGTTCTCAAAATCGGTGGAGCTGTATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTTATTACCGTCGCCATTTAAGGTGATAGTGGTTTTGGTTTCAGACACATCGAACCTGAAACGATTTGTCGA                                                                                  <  2:88791/149‑1                                                                               GGAGCTGCATGACAAAGTCACGGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGA                                                                  <  2:173173/149‑1                                                                                    TGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATC                                                             <  2:489224/149‑1                                                                                        TGACAAAGTCATCTGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTA                                                         >  2:2982/1‑149                                                                                                   TCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGACATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGAATGGAAAATGCAACGATTTGTCGATATAACCTACCGGTGACGATCGTTATTTTTAATAAT                                              <  2:396214/149‑1                                                                                                    CGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGACATTGAACCGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATG                                             <  2:264075/149‑1                                                                                                                    ATAAAACACTATCAATAAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGG                             >  1:303643/1‑149                                                                                                                                CAATAGGTTGGAGTCATTACGGTCGCGATGGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATGGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGAGACGGTGTTGA                 <  1:241571/149‑1                                                                                                                                 AATGAGTTGGAGTTATTACCGTTGCCATGGAAGTTTATAGTGCTTTTGGTTTCAGTTGGATGGAAATTGAAACGATTTGTCTAGATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGATACGGTGTTGAT                <  2:251226/149‑1                                                                                                                                    AAGTTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGCCACATACAGAGGAGACGGAGTTGATCTC             >  2:238432/1‑149                                                                                                                                     tGTTGGAGTCATTCCCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGAGACGGTGTTGATCTCA            <  1:390046/148‑1                                                                                                                                       TTGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGAGGCATCTACAGAGGAAACGATGTTGATTTCAtt          >  2:431222/1‑147                                                                                                                                        TGGAGTCATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAGCCTGCCGGTGTCGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGAGACGGTGTTGATCTCAGTG         <  1:325499/149‑1                                                                                                                                               ATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGAGACGGTGTTGGTCTCAGTGGCGCTGG  >  1:519441/1‑149                                                                                                                                               ATTACCGTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAATGGGATGGAAATTGAAACGATTTGTCGATCTACACTGCCGGTGACTCTCGTTATTTTTATTAATGGCGGCACCTACGGAGGAGACGATTTTAATCTCAGTGGCGTTGG  >  2:170657/1‑149                                                                                                                                                                                                                                                                                                     AATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/1978650‑1978503 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GTCGCCATTGAAGGTGATAGTGCTTTTGGTTTCAGTGGGATGGAAATTGAAACGATTTGTCGATATAACCTGCCGGTGACGATCGTTATTTTTAATAATGGCGGCATCTACAGAGGAGACGGTGTTGATCTCAGTGGCGCTGG  <  NC_000913_3_pae_tpiA/2490627‑2490485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.