New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	3305904 =	53 (1.810)	4 (0.150)	4/264	3.5	7.3%	intergenic (‑87/+67)	mtr/deaD	tryptophan transporter of high affinity/ATP‑dependent RNA helicase
	?	NC_000913_3_pae_pgi	3305929 =	52 (1.890)					intergenic (‑112/+42)	mtr/deaD	tryptophan transporter of high affinity/ATP‑dependent RNA helicase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CACCACGCCGCCAAGCAGCGACGGTGACGTTTGGGTGGTGGTTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACGTTCGCCGCTAAAA  >  NC_000913_3_pae_pgi/3305764‑3306052                                                                                                                                             |                                                                                                                                                     caccacGTCGCCAAGGAGCGACGGTGATGTTTGGGTGGTGGTTAGTGTTGCCATAAGGGCTTCTCTCTAGCGAAATATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGAAAAAAAAAAAGCCCCGAt                                                                                                                                              <  2:390890/149‑1 (MQ=255)     acGCCGCCAAGCAGCGACGGTGACGTTTGGGTGGTGGTTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAACGACAGAAAAAAAGCCCCGATGGTa                                                                                                                                          >  2:332831/1‑149 (MQ=255)     acGCCGCCAAGCAGCGACGGTGACGTTTGGGTGGTGGTTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGGACAAAAGACAGAAAAAAAGCCCCGATGGTa                                                                                                                                          >  1:60845/1‑149 (MQ=255)           ccAAGCAGCGACGGTGACGTTTGGGTGGTGGTTAGTGTTGACATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGCTGGTGAAAATc                                                                                                                                    >  1:66360/1‑149 (MQ=255)               gcagcGACGGTGACGTTTGGGTGGTGGTTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCCCTCTACCAGTACACGAGTCCAAAAGACAGAAAAAACGCCCCGATAGTAAAACTCgggg                                                                                                                                >  2:156994/1‑149 (MQ=255)                      gggggACGTTGGGGGGGTGGTTAGTGGTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGAAGGTAAAAATCGGGGCTGtata                                                                                                                         <  2:61751/145‑1 (MQ=255)                                         gtTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATtgtg                                                                                                      >  1:346045/1‑149 (MQ=255)                                         gtTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCGGTATATATTATTTTACAGATtgtg                                                                                                      >  1:184611/1‑149 (MQ=255)                                             gtgtTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCg                                                                                                  >  1:359374/1‑149 (MQ=255)                                                   ccATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACa                                                                                                             >  2:41344/1‑132 (MQ=255)                                                   ccATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACa                                                                                                             <  1:41344/132‑1 (MQ=255)                                                          ggCTTCTCTCCAGAGAAAAATAGTGCGACGGCGTTATTATGCATCGCACTGTACCAGTACACGAGTACGAAGGGCAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCgctg                                                                                     >  2:461121/1‑149 (MQ=255)                                                           gCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCgatga                                                                                    >  2:492095/1‑149 (MQ=255)                                                            cTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCgatgat                                                                                   >  2:230533/1‑149 (MQ=255)                                                              tctctcCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTa                                                                                 <  2:70286/149‑1 (MQ=255)                                                                tctcCAGTGAAAATTAGTGCGAATGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACg                                                                               <  1:396632/149‑1 (MQ=255)                                                                   ccAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCAt                                                                            <  1:366000/149‑1 (MQ=255)                                                                         aaaaaTAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATcaccac                                                                      >  1:272022/1‑149 (MQ=255)                                                                          aaaaTAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCaccacc                                                                     <  1:349602/149‑1 (MQ=255)                                                                          aaaaTAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCaccacc                                                                     >  2:353338/1‑149 (MQ=255)                                                                           aaaTAGTGCGACTGCGTTGTTATGCATTGCGCTGTACCAGTACACGCGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGAGCCTCTACATATAATTTTACCGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACGACCg                                                                    >  1:121301/1‑149 (MQ=255)                                                                           aaaTAGTGCGACTGCGTTGTCACACAACAGTGGTTATCAGCACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGCTTACGCATCACCACCg                                                                    >  2:113126/1‑149 (MQ=255)                                                                                 ggCGACTGCGTCGTTACGCATTGCACTGTACCAGTACACGAGTCCAAAAGACAGAAAAGAACCCCCGCTGGGAAAAATCGGGGCCTAACATATTATTGTACAGATAGCGGTCGCAGTTCAGCGCAGATTACGCATCACCCCCAACacga                                                              >  2:61052/2‑149 (MQ=255)                                                                                       tGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATcaccac                                                                      >  1:315383/1‑135 (MQ=255)                                                                                       tGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATcaccac                                                                      <  2:315383/135‑1 (MQ=255)                                                                                       tGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAAcgacgacga                                                        >  1:411759/1‑149 (MQ=255)                                                                                              ttATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGACACGACGACGACCGGTAg                                                 >  2:411464/1‑149 (MQ=255)                                                                                                 tGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAat                                              <  2:359374/149‑1 (MQ=255)                                                                                                    aTTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAatcat                                           <  2:320768/149‑1 (MQ=255)                                                                                                    aTTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAat                                              >  1:273236/1‑146 (MQ=255)                                                                                                    aTTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAat                                              <  2:273236/146‑1 (MQ=255)                                                                                                     ttGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAatcatc                                          <  1:332831/149‑1 (MQ=255)                                                                                                      tGCACTGTACCAGCACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCAGCACCACCGAAACGACGACGACCGGTAGAAtcatca                                         <  1:31181/149‑1 (MQ=255)                                                                                                        cACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTg                                                                                                                             <  2:415630/63‑1 (MQ=255)                                                                                                        cACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTg                                                                                                                             >  1:415630/1‑63 (MQ=255)                                                                                                             tACCAGTACACGAGTACACAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGAGTGTGTTCGCTGTTCAGCGATGATTACGCACCCGCACCGACAGGACGACGACCGGTGGAATCCTCGCGAcgcg                                  >  2:420037/1‑149 (MQ=255)                                                                                                              aCCAGTACACGAGTACAAAAGACAGAAAAAAAGCTCCGATGGTGAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGTTTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATTACGACGCgg                                 >  1:50374/1‑149 (MQ=255)                                                                                                                cAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGa                                                                   <  2:102238/113‑1 (MQ=255)                                                                                                                cAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGa                                                                   >  1:102238/1‑113 (MQ=255)                                                                                                                    acacGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGcgcg                           <  2:55286/149‑1 (MQ=255)                                                                                                                        gAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCt                       >  1:182057/1‑149 (MQ=255)                                                                                                                           ttaaaaaGACAGAAAAAAAGCCCGGATGGTAAAAATCGGGGCTGGATAAATTATTTTACAGATTGTGTTCGCTGGTCAGCGATGATTACCCTTCACCACCGAAACGACGACGACCGGTAGTATCGTCACGACGCGGAGCGCGGCCTTCa                    <  2:121301/146‑1 (MQ=255)                                                                                                                              aaaaGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGCCGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCacga                 >  1:82859/1‑149 (MQ=255)                                                                                                                              aaaaGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCacga                 >  1:204375/1‑149 (MQ=255)                                                                                                                               aaaGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCacgac                <  1:492095/149‑1 (MQ=255)                                                                                                                                aaGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCacgacg               <  2:277238/149‑1 (MQ=255)                                                                                                                                   aCAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACCTTc            >  2:197055/1‑149 (MQ=255)                                                                                                                                   aCAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTAGATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGCAGAAACATCTCGACGCGGAACGCGGCCTCCACGACGTTc            >  2:245847/1‑149 (MQ=255)                                                                                                                                     aGAAAAAATGCCCCGATGGCAAAAATCGCGGCTGTATAGCTTATTTTACAGATCGTGTTCGCTGTTCAGCGATGATTACGCACCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACGTTcgc          <  1:178845/149‑1 (MQ=255)                                                                                                                                       aaaaaaaGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCacgac                                     >  2:28109/1‑120 (MQ=255)                                                                                                                                       aaaaaaaGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCacgac                                     <  1:28109/120‑1 (MQ=255)                                                                                                                                       aaaaaaaGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACGTTcgccg        >  1:346609/1‑149 (MQ=255)                                                                                                                                         aaaaaGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACAAGCGCGGCGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACGCTcgccgcg      >  1:121070/1‑148 (MQ=255)                                                                                                                                             aGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACGTTCGCCGCTaaaa  <  1:230533/149‑1 (MQ=255)                                                                                                                                             |                                                                                                                                                     CACCACGCCGCCAAGCAGCGACGGTGACGTTTGGGTGGTGGTTAGTGTTGCCATGAGGGCTTCTCTCCAGTGAAAAATAGTGCGACTGCGTTGTTATGCATTGCACTGTACCAGTACACGAGTACAAAAGACAGAAAAAAAGCCCCGATGGTAAAAATCGGGGCTGTATATATTATTTTACAGATTGTGTTCGCTGTTCAGCGATGATTACGCATCACCACCGAAACGACGACGACCGGTAGAATCATCACGACGCGGAGCGCGGCCTTCACGACGTTCGCCGCTAAAA  >  NC_000913_3_pae_pgi/3305764‑3306052

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.