New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1263650 =	58 (0.910)	41 (0.660)	35/252	1.3	39.1%	intergenic (‑150/‑64)	lolB/hemA	lipoprotein localization factor/glutamyl tRNA reductase
	?	NC_000913_3_pae_tpiA	= 1263818	71 (1.140)					coding (105/1257 nt)	hemA	glutamyl tRNA reductase

GCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/1263795‑1263650 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aagCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTC  <  NC_000913_3_pae_tpiA/1263818‑1263676                                                                                                                                                                                                                                                                                                   GCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGG                                                                                                                                             <  2:497305/150‑1         GGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAG                                                                                                                                     <  1:556255/150‑1          GCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGC                                                                                                                                    <  3:355116/150‑1                  GATACACGTTCTCGCAGCAATACAGGTGCCGTGTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATC                                                                                                                            <  3:157351/150‑1                                      TACAGGTTACGTTTTATGGTTGATAGCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCACAGTTGATAGGGTTAGCCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACG                                                                                                        <  2:612147/150‑1                                              CCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAA                                                                                                                                                  <  2:725204/100‑1                                              CCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAA                                                                                                                                                  >  1:725204/1‑100                                                cTTTTATGCTTGATACCGAGTGCTAACAGGGTCATGTCAGCGGTAAGTACGACCGCCGGTGGTAGGGTTAGTCTCCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTC                                                                                              <  2:182691/149‑1                                                                CGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGGTACACGTTCTCGCAGC                                                                                       <  2:387180/141‑1                                                                CGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGAGACACGTTCTCGCAGC                                                                                       >  1:387180/1‑141                                                                         AAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCT                                                                                                                                           <  4:242054/80‑1                                                                         AAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCT                                                                                                                                           >  3:242054/1‑80                                                                           AGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATG                                                                   <  1:42895/150‑1                                                                               TCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTG                                                               >  4:309796/1‑150                                                                                CATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGA                                                              >  4:90584/1‑150                                                                                        CGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGT                                                      <  3:90584/150‑1                                                                                          GGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAG                                                                                                                         >  2:250608/1‑81                                                                                          GGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAG                                                                                                                         <  1:250608/81‑1                                                                                          GGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAG                                                                                                                         >  2:628065/1‑81                                                                                          GGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAG                                                                                                                         <  1:628065/81‑1                                                                                               TAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGATGTCAGGCGCCTGATCGAGCTTGTGCAGCGAAAACGATACACGGTCGCGCAACGATACGGGGGCCGCTGTATGGTTGATACCGAGAGCTAAAA                                               >  4:191567/1‑150                                                                                                      AACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCAT                                        >  1:537944/1‑150                                                                                                              TAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGG                                <  3:309796/150‑1                                                                                                                  GTTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAA                            >  4:104356/1‑150                                                                                                                   TTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCCAGCTTATCCAGCGAACACGATACACGTTCTCGCAGCGATACAGGTGCCGCTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAAT                           >  2:35377/1‑150                                                                                                                   TTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGT                                                                                                                                         <  2:123546/40‑1                                                                                                                   TTAGTCTGCTTGCATCATACAGGATGCGTAAGCAGGCTGT                                                                                                                                         >  1:123546/1‑40                                                                                                                         TGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTG                                                     <  4:122105/118‑1                                                                                                                         TGCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTG                                                     >  3:122105/1‑118                                                                                                                          GCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGT                                                                                                <  4:56122/74‑1                                                                                                                          GCTTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGT                                                                                                >  3:56122/1‑74                                                                                                                            TTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAAC                  <  3:104356/150‑1                                                                                                                            TTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGC                                                                                                                                    >  1:449786/1‑36                                                                                                                            TTGCATCATACAGGATGCGTAAGCAGGCTGTCAAGC                                                                                                                                    <  2:449786/36‑1                                                                                                                                   ATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAA                            >  1:101967/1‑133                                                                                                                                   ATACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAA                            <  2:101967/133‑1                                                                                                                                    TACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGG                               <  2:664169/129‑1                                                                                                                                    TACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGG                               <  2:663905/129‑1                                                                                                                                    TACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGG                               >  1:663905/1‑129                                                                                                                                    TACAGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGG                               >  1:664169/1‑129                                                                                                                                       AGGATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGT       >  1:688019/1‑150                                                                                                                                         GATGCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTA     >  4:233004/1‑150                                                                                                                                            GCGTAAGCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTC  >  1:407722/1‑150                                                                                                                                                                                                                                                                                                   GCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/1263795‑1263650 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aagCAGGCTGTCAAGCGCCTGATCGAGCTTATCCGGCGAAAACGATACACGTTCTCGCAGCGATACAGGTGCCGTTTTATGGTTGATACCGAGTGCTAAAAGGGTCATGTCTGCGGGAAATAATACCAACGTTGATAGGGTTAGTC  <  NC_000913_3_pae_tpiA/1263818‑1263676

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ 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.