New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2456281 =	20 (1.290)	4 (0.290)	4/218	1.3	21.9%	intergenic (‑635/+46)	yfcV/sixA	putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
	?	NC_000913_3_pae_tpiA	2456318 =	11 (0.800)					intergenic (‑672/+9)	yfcV/sixA	putative fimbrial‑like adhesin protein/phosphohistidine phosphatase

CTTTCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCGGACATAA  >  NC_000913_3_pae_tpiA/2456190‑2456458                                                                                                                                 |                                                                                                                                             cgtaacgcttgatgaaagcggaaacggcacattcaactggcagatgagcccgtgtaatctgaagatggcaaaagctatctgatgagttccaAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCtttt                                                                                                                         >  2:36763‑M1/92‑150 (MQ=255)         aTGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCtt                                                                                                                 <  1:164539/150‑1 (MQ=255)           gatgaaagcggaaacggcacattcaactggcagatgagcccgtgtaatctgaagatggcaaaagctatctgatgagttccaAATTATGCCCAATGAATCTACCTCTTCGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCa                                                                                                               >  4:17679‑M1/82‑150 (MQ=255)            aaaGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTg                                                                                                                        <  1:98699/140‑1 (MQ=255)            aaaGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTg                                                                                                                        >  2:98699/1‑140 (MQ=255)                      gtgtTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTg                                                                                                                                             >  1:141212/1‑109 (MQ=255)                      gtgtTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTg                                                                                                                                             <  2:141212/109‑1 (MQ=255)                            cacattcaactggcagatgagcccgtgtaatctgaagatggcaaaagctatctgatgagttccaaattatgcccaatgaggtagattcattgggcataattTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACg                                                                                                      >  4:27749‑M2/102‑142 (MQ=255)                            cacattcaactggcagatgagcccgtgtaatctgaagatggcaaaagctatctgatgagttccaaattatgcccaatgaggtagattcattgggcataattTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACg                                                                                                      <  3:27749‑M2/41‑1 (MQ=255)                                                   cgtgtaatctgaagatggcaaaagctatctgatgagttccaAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAAtgtg                                                                               >  4:27749‑M1/42‑142 (MQ=255)                                                   cgtgtaatctgaagatggcaaaagctatctgatgagttccaAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAAtgtg                                                                               <  3:27749‑M1/101‑1 (MQ=255)                                                            tgaagatggcaaaagctatctgatgagttccaaattatgcccgaagaggtagattcattgggcataattTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTtcatc                                                              >  4:17679‑M2/70‑150 (MQ=255)                                                               ggTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAg                                                           >  1:11937/1‑150 (MQ=255)                                                                   gACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAg                                                                                                              >  2:151602/1‑95 (MQ=255)                                                                   gACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAg                                                                                                              <  1:151602/95‑1 (MQ=255)                                                                   gACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGtt                                                       <  2:11937/150‑1 (MQ=255)                                                                    aCAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCg                                                                      <  2:183168/134‑1 (MQ=255)                                                                    aCAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCg                                                                      >  1:183168/1‑134 (MQ=255)                                                                      aaaagctatctgatgagttccaaattatgcccaatgaggtagattcattgggcataattTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACg                                                    >  2:36763‑M2/60‑150 (MQ=255)                                                                                                                   cattgggcataattTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCGGa       <  1:36763‑M2/136‑1 (MQ=255)                                                                                                                        ggcataattTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCGGACATaa  >  1:109392‑M2/10‑150 (MQ=255)                                                                                                                                 |                                                                                                                                             CTTTCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCGGACATAA  >  NC_000913_3_pae_tpiA/2456190‑2456458

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.