New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2456281 =	42 (1.420)	3 (0.110)	3/260	3.8	7.8%	intergenic (‑635/+46)	yfcV/sixA	putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
	?	NC_000913_3_pae_tpiA	2456318 =	33 (1.250)					intergenic (‑672/+9)	yfcV/sixA	putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AGAAGAATACTTTCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCG  >  NC_000913_3_pae_tpiA/2456181‑2456451                                                                                                                                          |                                                                                                                                      agaaaaATGATTTGCGAATGTAAGTTAAAGGAGTTTTATTTATAGATTGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGATGGCTGATGGGCAATTATGCGCAATGAATCTACCTCATTGGGGATAATTTGGAACtcatca                                                                                                                            <  2:185266/149‑1 (MQ=255)        tACTTTCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCt                                                                                                                     >  2:422858/1‑149 (MQ=255)           tttGCGAATGAAAGTTAATGGTGGTGTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCtttt                                                                                                                  <  2:78299/149‑1 (MQ=255)           tttCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATa                                                                                                                        <  2:79173/143‑1 (MQ=255)           tttCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATa                                                                                                                        >  1:79173/1‑143 (MQ=255)                 aaTGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATc                                                                                                            >  1:375617/1‑149 (MQ=255)                     aaaGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGACAGCTTTTGCCATCTTCa                                                                                                        <  1:237567/149‑1 (MQ=255)                        tttAAAGGTGTTTTATTCAGAGATTGTGAGAGGCTTCCGTAGTAGTGAGGTTGACAGATAGCCGCTGACTGATGAGCAATTATGCCCAATGAACCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGAt                                                                                                     <  2:25254/148‑1 (MQ=255)                         ttAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGAtt                                                                                                    >  1:36764/1‑149 (MQ=255)                            aaGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTaca                                                                                                 >  1:277687/1‑149 (MQ=255)                              ggTGTTTTATTTATAGATGGGGAGAGTTTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACg                                                                                               <  2:47491/149‑1 (MQ=255)                               gtgtTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTc                                                                                                         <  1:258839/138‑1 (MQ=255)                               gtgtTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTc                                                                                                         >  2:258839/1‑138 (MQ=255)                                     tatttatAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCAt                                                                                        >  1:475229/1‑149 (MQ=255)                                      atttatAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATc                                                                                       <  1:21959/149‑1 (MQ=255)                                       tataaaGATGGGGAGAGTCTCCGATAGTAGTGAGGTTGACCGATATCCGATGCCTGATGAGCAATTATGCCCAATCAATCGACGTCATTAGGCATAATTTGGAACTCCTCAGATAGCTTTTGACATCTTCAGGATACACCGGTTCATCt                                                                                      >  2:10488/6‑149 (MQ=255)                                                 gggAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGaa                                                                            <  2:300908/149‑1 (MQ=255)                                                  ggAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAAt                                                                           >  2:312962/1‑149 (MQ=255)                                                  ggAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCACAGTACGGGGGCTCATCTGCCAGTTGAAt                                                                           <  2:60126/149‑1 (MQ=255)                                                          ttCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCCGTTGAATGTGCCGtt                                                                   >  1:521036/1‑149 (MQ=255)                                                           tCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGACGttt                                                                  <  1:312962/149‑1 (MQ=255)                                                                 gtagtGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCCGATAGCTTTTGCCAGCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCtt                                                            <  2:321254/149‑1 (MQ=255)                                                                          ttGACAGATATCCGCTCCCCGAAGCGCAATTATGCCCAAACAATCTACCTCATTGGGTATAATTTGGAACTCATCAGATAGCCTTTTACATCTTGAGATTACACGGGCTAATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGc                                                   <  1:187817/149‑1 (MQ=255)                                                                            gACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTCCCCGTTGACTGTCGCGTTTCCGCTTTCATCAAGCGt                                                 >  2:269783/1‑149 (MQ=255)                                                                               aGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTAc                                              >  1:374880/1‑149 (MQ=255)                                                                                       gCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCaa                                      >  1:392765/1‑149 (MQ=255)                                                                                       gCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCaa                                      >  1:482251/1‑149 (MQ=255)                                                                                           ccTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGc                                  <  1:279873/149‑1 (MQ=255)                                                                                               atgaGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGCTAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAACAGCCGAg                              >  1:45655/1‑149 (MQ=255)                                                                                                   gCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAggtgg                          <  1:401134/149‑1 (MQ=255)                                                                                                              cAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAggc               <  1:381957/149‑1 (MQ=255)                                                                                                                          ctaagtGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGccc   <  2:142890/144‑1 (MQ=255)                                                                                                                          cTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGttt                                                                  <  1:91401/86‑1 (MQ=255)                                                                                                                          cTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGttt                                                                  >  2:91401/1‑86 (MQ=255)                                                                                                                           tCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCg  <  2:475229/149‑1 (MQ=255)                                                                                                                                          |                                                                                                                                      AGAAGAATACTTTCCGAATGAAAGTTAAAGGTGTTTTATTTATAGATGGGGAGAGTCTTCGATAGTAGTGAGGTTGACAGATATCCGCTGCCTGATGAGCAATTATGCCCAATGAATCTACCTCATTGGGCATAATTTGGAACTCATCAGATAGCTTTTGCCATCTTCAGATTACACGGGCTCATCTGCCAGTTGAATGTGCCGTTTCCGCTTTCATCAAGCGTTACGCTGGCAATGGCCGAGGTGGTAAACATAGGCGGCGTTTCGCCCG  >  NC_000913_3_pae_tpiA/2456181‑2456451

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.