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

CGAGCTGTTCTTGCATGATGTCCTTCGTTTCCAAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCA  >  NC_000913_3_pae_tpiA/1975018‑1975283                                                                                                                                                 |                                                                                                                          gtgacagcgtgagcatggatataagcgatttttatcagacattttttgatgaagcggacgaactgttggctgacatggagcagcatttgctggttttgcagccggaagcgccagatgccgaacaattgaatgccatctttcgggCTGccc                                                                                                                      <  4:97565‑M1/6‑1 (MQ=255)           ttGCATGATGTCCTTCGTTTCCAAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGAt                                                                                                            >  4:74985/1‑150 (MQ=255)                 gatgTCCTTCGTTTCCAAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTg                                                                                                      <  2:27537/150‑1 (MQ=255)                                                    aagcggacgaactgttggctgacatggagcagcatttgctggttttgcagccggaagcgccagatgccgaacaattgaatgccatctttcgggCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCAtt                                                                                 >  2:160994‑M1/94‑136 (MQ=255)                                                    aagcggacgaactgttggctgacatggagcagcatttgctggttttgcagccggaagcgccagatgccgaacaattgaatgccatctttcgggCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCAtt                                                                                 <  1:160994‑M1/43‑1 (MQ=255)                                                           gAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTggg                                                                                                    <  2:132559/110‑1 (MQ=255)                                                           gAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTggg                                                                                                    >  1:132559/1‑110 (MQ=255)                                                                     tcACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGc                                                  <  3:74985/150‑1 (MQ=255)                                                                     tcACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGc                                                  >  3:84559/1‑150 (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                                                                                   >  2:13921/1‑69 (MQ=255)                                                                                                                     tCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCa                                                                                   <  1:13921/69‑1 (MQ=255)                                                                                                                     tCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTtca  >  1:114236/1‑150 (MQ=255)                                                                                                                                                 |                                                                                                                          CGAGCTGTTCTTGCATGATGTCCTTCGTTTCCAAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGCAGGTTTTCCATCAGATGCGTGGTTTCCTGCAAAACGCTGAAGCCAAAAGTTCCTGCCCCTCCTTTGATCGAGTGGGCAGCCCGAAAGATGGCATTCAATTGTTCGGCATCTGGCGCTTCCGGCTGCAAAACCAGCAAATGCTGCTCCATGTCAGCCAACAGTTCGTCCGCTTCA  >  NC_000913_3_pae_tpiA/1975018‑1975283

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