New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1975162 =	12 (0.770)	4 (0.270)	4/236	1.5	26.3%	coding (163/1965 nt)	cheA	fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein
	?	NC_000913_3_pae_tpiA	1975189 =	11 (0.740)					coding (136/1965 nt)	cheA	fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein

CGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCATCAAAAAATGTCTGATAAAAATCGCTTATATCCATGCTCACGCTGTCAC  >  NC_000913_3_pae_tpiA/1975069‑1975332                                                                                                                         |                                                                                                                                                aagcggacgaactgttggctgacatggagcagcatttgctggttttgcagccggaagcgccagatgccgaacaattgaatgccatctttcgggCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCAtt                                                                                                                                  <  1:160994‑M1/43‑1 (MQ=255) aagcggacgaactgttggctgacatggagcagcatttgctggttttgcagccggaagcgccagatgccgaacaattgaatgccatctttcgggCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCAtt                                                                                                                                  >  2:160994‑M1/94‑136 (MQ=255)                  tcACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGc                                                                                                   >  3:84559/1‑150 (MQ=255)                  tcACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGc                                                                                                   <  3:74985/150‑1 (MQ=255)                                 tCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAAtgc                                                                                    <  4:84559/150‑1 (MQ=255)                                                       gATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCa                                                                                            <  1:16984/120‑1 (MQ=255)                                                       gATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCa                                                                                            >  2:16984/1‑120 (MQ=255)                                                       aagcgccagatgccgaacaattgaatgccatctttcgggCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTc                                                                                                                         >  1:46191‑M1/40‑91 (MQ=255)                                                       aagcgccagatgccgaacaattgaatgccatctttcgggCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTc                                                                                                                         <  2:46191‑M1/52‑1 (MQ=255)                                                                  tCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCa                                                                                                                                    <  1:13921/69‑1 (MQ=255)                                                                  tCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCa                                                                                                                                    >  2:13921/1‑69 (MQ=255)                                                                  tCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTtca                                                   >  1:114236/1‑150 (MQ=255)                                                                     gaacaattgaatgccatctttcgggctgcccactcgatcaaaggaggggcagCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCtt                                                                                                           <  2:46191‑M2/39‑1 (MQ=255)                                                                     gaacaattgaatgccatctttcgggctgcccactcgatcaaaggaggggcagCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCtt                                                                                                           >  1:46191‑M2/53‑91 (MQ=255)                                                                              aatgccatctttcgggctgcccactcgatcaaaggaggggcagCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCtt                                                     >  2:160994‑M2/44‑136 (MQ=255)                                                                              aatgccatctttcgggctgcccactcgatcaaaggaggggcagCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCtt                                                     <  1:160994‑M2/93‑1 (MQ=255)                                                                                                 CCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTcc                                                                              >  3:19044‑M1/1‑92 (MQ=255)                                                                                                 CCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTcc                                                                              <  4:19044‑M1/92‑1 (MQ=255)                                                                                                     tcctTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCATCAAAAAATGTCTGATAAAAATCGCTTATATCCAt                <  2:114236/150‑1 (MQ=255)                                                                                                        tttGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCATCAAAAAATGTCTGATAAAAATCGCTTATATCCATGCt             >  4:10519/1‑150 (MQ=255)                                                                                                                  tGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCATCAAAAAATGTCTGATAAAAATCGCTTATATCCATGCTCACGCTGTCa   >  3:97565/1‑150 (MQ=255)                                                                                                                   gggcagCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCATCAAAAAATGTCTGATAAAAATCGCTTATATCCATGCTCACGCTGTCAc  <  4:97565‑M2/144‑1 (MQ=255)                                                                                                                         |                                                                                                                                                CGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCATCAAAAAATGTCTGATAAAAATCGCTTATATCCATGCTCACGCTGTCAC  >  NC_000913_3_pae_tpiA/1975069‑1975332

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ 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.