New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1207805	4 (0.140)	23 (0.900)	16/254	0.7	87.5%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913_3_pae_tpiA	= 1209602	3 (0.120)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related

CGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG  >  NC_000913_3_pae_tpiA/1209456‑1209740                                                                                                                                                   |                                                                                                                                           cGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGcc                                                                                                                                          >  1:218381‑M2/1‑147 (MQ=255)           gCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAATAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaa                                                                                                                                >  1:435457‑M2/1‑137 (MQ=255)               tttatttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaa                                                                                                                            >  2:230414‑M2/1‑133 (MQ=255)               tatatttGTCGGAGAAGCGTGTGCCGGTCTCGGGTATTATTCAAGAGAAAGAGCGGCACCATTGCAGTTCAGCCAGCCTGTGGGCGGAGTGTCTGCAGGCCACGGAACCTGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCaa                                                                                                                            <  2:368873/147‑1 (MQ=255)                ttatttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTTTTCATCATAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaag                                                                                                                           >  1:472164‑M2/1‑132 (MQ=255)                ttatttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAAc                                                                                                                           <  2:247433/149‑1 (MQ=255)                               gCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGGTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgt                                                                                                            <  1:272047‑M2/149‑33 (MQ=255)                                       cAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacag                                                                                                    <  1:154397‑M2/149‑41 (MQ=255)                                       cAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacag                                                                                                    <  1:55988‑M2/149‑41 (MQ=255)                                              gggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCAACGGAACCGGGACACCAACAGGTAATGCAAAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                             <  2:41204‑M2/149‑48 (MQ=255)                                                             gAAAAAGCGGCACCAGTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCTACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTTTCCCAAACCATCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGc                                                                              <  2:353007/149‑1 (MQ=255)                                                                                aTTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagtgccgtttgcacagtgccatccgctttgatatcgccaaacggattcttgcgcctt                                                           <  2:168622‑M2/149‑82 (MQ=255)                                                                                aTTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggctt                                                           <  2:237635‑M2/149‑82 (MQ=255)                                                                                aTTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggctt                                                           <  2:168619‑M2/149‑82 (MQ=255)                                                                                    cagcctgcCTGTTGGCTGAGTGGCTGAATGCAACGGAATCGGGACGCCAACACGTAATTCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttcatatcgccaaacggattcttgcggcttaaca                                                       >  1:168622‑M2/1‑64 (MQ=255)                                                                                    cagccagcCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaaca                                                       >  1:168619‑M2/1‑64 (MQ=255)                                                                                       ccagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagca                                                    >  1:116723‑M2/1‑61 (MQ=255)                                                                                          gccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgctatcgccaaacggcttcttgccgcctaacagcagcg                                                 <  1:430924‑M2/149‑92 (MQ=255)                                                                                             tGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgc                                              >  2:253397‑M2/1‑55 (MQ=255)                                                                                                          gCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaag                                 <  1:10670‑M2/149‑108 (MQ=255)                                                                                                             gAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagccgcgcgcgaagtgcggtaagtaa                              <  1:64680‑M2/149‑111 (MQ=255)                                                                                                                            gggACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagatccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagttcggtaagtaactggtcgtgccgccc               <  2:8228‑M2/149‑126 (MQ=255)                                                                                                                            gggACACCAACAGGCAAGGCAGAGccttctcccaaaccaaggttttcgagacccgtttgcacagtgccatccgatttgatatcgccaaaccacttcttccggcttaacagcagcgcgcgaagggcggttcgtaactggtcgtccagccc               <  2:439850‑M2/149‑126 (MQ=255)                                                                                                                             tgccaccaaCAGGGAATGCAGAGccttttcccaaaccaaggttttcgtgagccgtttgcacggtgccacccgatttgatatctccaaatggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgcccc              >  2:150776‑M2/4‑23 (MQ=255)                                                                                                                                 aacAACAGGGAATGCAGATCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGAt          <  2:366264/147‑1 (MQ=255)                                                                                                                                    aaCAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagccacgcgcgaagtgcggtaagtaactggtcgtgccgcctcttctcca       <  2:423025‑M2/149‑134 (MQ=255)                                                                                                                                    aaCAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaa                              <  2:203396‑M2/126‑111 (MQ=255)                                                                                                                                    aaCAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaa                              >  1:203396‑M2/1‑16 (MQ=255)                                                                                                                                    aaCAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcgggaagtaactggtcgtgccgccccttcgtca       <  2:352796‑M2/149‑134 (MQ=255)                                                                                                                                         gTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccaggctg  >  1:245034‑M2/1‑11 (MQ=255)                                                                                                                                                   |                                                                                                                                           CGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG  >  NC_000913_3_pae_tpiA/1209456‑1209740

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.