New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2304842 =	NA (NA)	4 (0.150)	4/272	3.4	NA	noncoding (426/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
	?	NC_000913_3_pae_tpiA	= 2347327	NA (NA)					noncoding (168/203 nt)	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences
Rejected: Coverage evenness skew score above cutoff.

TCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCA  >  NC_000913_3_pae_tpiA/2347184‑2347475                                                                                                                                                |                                                                                                                                                      tCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAgg                                                                                                                                                  >  1:106619/1‑149 (MQ=255) tCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAgg                                                                                                                                                  >  1:104825/1‑149 (MQ=255)        tACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATgcggc                                                                                                                                           <  1:69106/149‑1 (MQ=255)             cTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTaaa                                                                                                                                      >  1:30828/1‑149 (MQ=255)                       aGGCGTGATAAGACGCGCCAGCGGCGTATCAGGCTCCGGCTGCCGGATGCAGCGTGAACGCCTTATCCGGTCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATc                                                                                                                            <  2:27481/149‑1 (MQ=25)                                aaGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCGTTATCCGGCAttta                                                                                                                   >  1:225715/1‑147 (MQ=255)                                  gACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCCGCGGCCCATCTTGTAACGGATGAGCCGTAAAATGCCTTATCCGTGATTAAAc                                                                                                                 >  1:239501/1‑149 (MQ=25)                                  gACGCGCCAGCGTCGCAGCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCTGCCTGACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAAc                                                                                                                 <  1:115989/149‑1 (MQ=37)                                   aCGCGCCAGCGTCGCATCAGGCTCCGGGTGCAGGATGCAGCGTGAACGCCTTATCCAGCCTACGGCCCGGATTTGTAGGCCTGGTCAGACGCGCCCGCGGCGCATCAGGCCCAGGATGCGCCGGAGAATGCCTTATCCGCCATCaaaac                                                                                                                >  2:268966/1‑147 (MQ=255)                                    cccgcCAGCGTCGCATCAGCCTCCGGGTTACGAATCTAGCTTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTCATACGACGCGCCAGCGTCGCATCACGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTc                                                                                                               <  1:92770/147‑1 (MQ=25)                                          agcgctgCATCAGGCTGCGGGTGGCGGAGGCAGCGTGAACGCCTTATCCGGCCTGCGGCTGGGATTTGTAGGCCTGATAATACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑a                                                                                                        <  2:194918/143‑1 (MQ=37)                                                 cATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGacaca                                                                                                 <  2:104825/149‑1 (MQ=255)                                                 cATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGacaca                                                                                                 <  2:106619/149‑1 (MQ=255)                                                      ggCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCgg                                                                                                                         <  1:137378/121‑1 (MQ=255)                                                      ggCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCgg                                                                                                                         >  2:137378/1‑121 (MQ=255)                                                         gccGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGc                                                                                         <  1:156520/148‑1 (MQ=255)                                                          ccgggtgccgggtgCCGACTCAGCGCTCTATCCGGCCTACGGCTTGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCa                                                                                        <  2:374972/149‑1 (MQ=37)                                                           cGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGAATTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATCAAAATCCCAAC‑AGGACACACCCATGACat                                                                                       >  2:111368/1‑149 (MQ=25)                                                            agatGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCata                                                                                      <  1:406159/146‑1 (MQ=255)                                                                  cGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATaccac                                                                                <  2:215876/149‑1 (MQ=255)                                                                   ggATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATaccacc                                                                               <  2:429054/149‑1 (MQ=255)                                                                          gCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATTCGGAGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AAGACACACTCATTACATATACCACCCTTTccc                                                                        >  2:364908/1‑147 (MQ=25)                                                                           gtggAACGCCTTATCCGGCCTACGCCGCGGATTTGCAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCCTGGCAGATACCACCTTTTcaca                                                                       <  2:115185/146‑1 (MQ=38)                                                                              gAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCCTTTCACAGAc                                                                    >  2:461685/1‑149 (MQ=255)                                                                                      tATGCGGCGTACGGCTCGGGTTCGGAAGCCAGATAATACGCGCCAGCGACGAATAAGGGACAGGACGCAGCGGAAAATGCCTTAGCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTATCACAGACGAAAAATg                                                            <  2:50288/149‑1 (MQ=255)                                                                                       aTCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGACTTCTGATGCA‑TGAAGTCGTGGCTTGCGCACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGa                                                           <  1:243737/149‑1 (MQ=18)                                                                                          cGGCCTACGGCTCGGATTTGTAGGCCGGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGGAAAATTATCa                                                        >  2:162638/1‑149 (MQ=255)                                                                                                 cGGTTCGGATGTGGAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCATTTCACAGACGAAAAATGATCAGCTCaaa                                                 <  2:102056/149‑1 (MQ=255)                                                                                                    cTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGaa                                              >  1:406326/1‑149 (MQ=255)                                                                                                     tCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATAAGGCACAGGATTCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AACACACACTCATGGCATATACAACCTTTTCACAGACGAAAAAAGATCAGCTCAAAGacc                                             >  2:148552/1‑147 (MQ=39)                                                                                                     tCGGATTGTTAGACCTCATAAGACGCCCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAATCTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAAc                                             <  1:472135/149‑1 (MQ=255)                                                                                                        gATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGa                                          <  1:291516/149‑1 (MQ=255)                                                                                                           gttcacgCCTGATAGGACGGTCCAGCGCCGGATCAGGTACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGt                                       <  2:373474/143‑1 (MQ=255)                                                                                                             gTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTc                                     <  2:215989/149‑1 (MQ=255)                                                                                                              tAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACGCACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCt                                    >  1:373054/1‑149 (MQ=255)                                                                                                               agcccgcaTAAGACGCGCCTGCTTCGCATCAGGACTAGGATCTGGCATAAAATGCCTTCGCCGGCATTAAACTCCCAAC‑AGGACACACTTATGCCATCTACCACCTTTTCACAGACGAAAAATGATCACCTCAAAGAACCGATGTTCtt                                   <  1:31232/142‑1 (MQ=255)                                                                                                                 gtaggATTAGACGCGTGAGGGTCGCATCAGGCACAGGAGGCGGCGGAAAAGGCGGCTTCCGGCATGAAGCTCCCAAC‑AGGACACACTCATGGCAAATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTg                                 <  2:14415/145‑1 (MQ=255)                                                                                                                   gtGATAAGACGAGACAGTGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTGCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGt                               <  2:20290/148‑1 (MQ=255)                                                                                                                           aCGCGCCAGCGTCGCACCAGGCACAGTATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGt                       <  1:413105/149‑1 (MQ=255)                                                                                                                                       cGCAGCAGGCCCCGGATGCGGAGTAAATCGTCTTATGCGGCGTTACCCTGCCGCC‑GGGACACACTCATGGCATATACCACCTTTTCAGAGACGAAAAATGATCTGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCg           <  2:231281/149‑1 (MQ=255)                                                                                                                                         cATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTAAGCCGGTCAATGTGGCTCGCt         >  2:320165/1‑149 (MQ=255)                                                                                                                                               gCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGACAACGTGGCTCGCTACGATc   >  1:459556/1‑149 (MQ=255)                                                                                                                                                cacaGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCa  <  1:99195/149‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                      TCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAC‑AGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCA  >  NC_000913_3_pae_tpiA/2347184‑2347475

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.