New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2236680 =	49 (1.250)	5 (0.130)	5/272	5.0	9.3%	noncoding (147/150 nt)	REP156 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP156 (repetitive extragenic palindromic) element; contains 3 REP sequences
	?	NC_000913_3_pae_tpiA	= 2945992	NA (NA)					noncoding (97/97 nt)	RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CACCTCAGAATTAAAAAGGGCGAGGTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCGGGGCGGTTTTCAGCACCCAGACACGTCCATA  >  NC_000913_3_pae_tpiA/2945845‑2946140                                                                                                                                                    |                                                                                                                                                     cACCTCAGAATTAAAAAGGGCGAGTTTATCCCGCACCCTACACGCATAAATTCCTTATGCGCTACGCCTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATGCGGCGTGAACGCCTTATCCGGcc                                                                                                                                                     <  1:386105/149‑2 (MQ=255)  aCCTCAGAATTAAAAAGGGCGAGGTTACCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAt                                                                                                                                                    <  2:689187/149‑1 (MQ=255)      cAGAATTAAAAAGGGCGAGGTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGaac                                                                                                                                                <  1:600747/149‑1 (MQ=255)      cAGAATTAAAAAGGGCGAGGTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCAACATGACTGTGGATTCCAGACGTGTTTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGaac                                                                                                                                                <  1:172562/149‑1 (MQ=21)               ataGGGCGAGGTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCAc                                                                                                                                       <  1:398812/147‑1 (MQ=255)                     cGAGGTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTc                                                                                                                                 <  1:76610/149‑1 (MQ=255)                         gTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCaata                                                                                                                             <  1:418860/149‑1 (MQ=255)                           tATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCaataat                                                                                                                           <  2:41960/149‑1 (MQ=255)                              cccGCACCCTAAACGCATAAATGCCGGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAg                                                                                                                        <  1:54539/149‑1 (MQ=255)                               ccTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAgg                                                                                                                       >  1:487654/1‑149 (MQ=255)                                cTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCCATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGa                                                                                                                      >  1:212362/1‑149 (MQ=255)                                cTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAt                                                                                                                                                    <  1:333964/119‑1 (MQ=255)                                cTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAt                                                                                                                                                    >  2:333964/1‑119 (MQ=255)                                    cccTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGAtgtg                                                                                                                  >  2:52816/1‑149 (MQ=255)                                    cccTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGAtgtg                                                                                                                  <  1:401672/149‑1 (MQ=255)                                      cTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGAGGTGAg                                                                                                                <  2:487654/149‑1 (MQ=255)                                       tAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTCGTCAATAATCAGGATGTGAgg                                                                                                               <  2:635478/149‑1 (MQ=255)                                             cATAAATGCCTGGTGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTAccc                                                                                                         <  2:595783/149‑1 (MQ=255)                                                 caTGCCTGATGCGCTACGCTTATCCGGCCTACATAACCCCTGCAATATTTTGGATGTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCa                                                                                                     <  1:42903/148‑1 (MQ=255)                                                       tGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGGTACCCCGCACCCGGt                                                                                               >  1:428095/1‑149 (MQ=255)                                                       tGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATAATTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATACGGCATCAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTCCCCCTCACCCAGt                                                                                               >  2:615279/1‑149 (MQ=25)                                                               tACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCg                                                                                       <  1:296636/149‑1 (MQ=255)                                                                 cGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCCGCCATATCCGTa                                                                                     >  2:259558/1‑149 (MQ=255)                                                                        cAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACgg                                                                              <  1:505518/149‑1 (MQ=255)                                                                         aGGCCTACACAATCCCCGCAATATTTTGGATTAGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGc                                                                             <  1:29684/149‑1 (MQ=37)                                                                            cccaCATAACGCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATa                                                                          <  1:26282/146‑1 (MQ=255)                                                                                 aTAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTAccc                                                                                                         <  2:38502/113‑1 (MQ=255)                                                                                 aTAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTAccc                                                                                                         >  1:38502/1‑113 (MQ=255)                                                                                      tCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATACGGCGTTCACGCCGCATCCGGCATCAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTCCCCCCCACCCTGTCAGATCCGGAACAACGGCATACAGAATGTct                                                                >  1:185923/1‑148 (MQ=37)                                                                                         tGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACAt                                                             >  1:256488/1‑149 (MQ=255)                                                                                         tGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTGATCCCTCACCCTGTCGTAGCCGTAAAAACGGCTGACAGCATATCACAt                                                             >  1:597997/1‑149 (MQ=25)                                                                                          gCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATc                                                            <  1:52816/149‑1 (MQ=255)                                                                                              tatTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATCATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGcc                                                        <  1:550549/149‑1 (MQ=255)                                                                                                      aTTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGa                                                >  2:201003/1‑149 (MQ=255)                                                                                                      aTTTGCATGATTCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGa                                                <  1:179049/149‑1 (MQ=255)                                                                                                                       gCCGGATAAGGCTTTGACTCCGCATCCGGCCGGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCTTGTCATACCCGTAAAAACGGCATACAGAATCTCACATCAGCCGCTAAAGACGTTACCTGCGCCCggt                               <  2:219449/149‑2 (MQ=255)                                                                                                                       gCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTAc                                          <  2:384392/138‑1 (MQ=255)                                                                                                                       gCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTAc                                          >  1:384392/1‑138 (MQ=255)                                                                                                                       gCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCggg                               >  2:379898/1‑149 (MQ=255)                                                                                                                        ccGGATAAGGCGTTCAGGCCGCAGCGGGCATGAACAACGCGTACTTCGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCgggg                              <  2:458443/149‑1 (MQ=255)                                                                                                                        ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCa                                                                            <  2:209738/103‑1 (MQ=255)                                                                                                                        ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCa                                                                            >  1:209738/1‑103 (MQ=255)                                                                                                                         cGGATAAGGTGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCGGGGc                             <  2:684511/149‑1 (MQ=255)                                                                                                                                        cgccgcATCCGGCATGAACGACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCTCTCACACTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCGGGGCGGTTTTCAGCACCCa              <  1:683364/149‑1 (MQ=255)                                                                                                                                            gcATCCGGCATAAACAACGCGCACTTAGTCACTCATCGGGCTGTGGGTTTAAACGTCACCTGGACAGGTCCGTAAGAACTGCAAACAGTAGATCACGGCAGGCGCTAAGGACGTTACCTGCGCCCGGGGCGGTTTTCAGCACCCAGaca          <  2:428095/149‑1 (MQ=255)                                                                                                                                               ctcGGCATTAACAACGAGCCCTTAATCAATAATCAGGATGTGAGGTTCCCCCTCACCCCGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCGGGGCGGTTTTCAGCACCCAGACACGt       <  1:670893/147‑1 (MQ=255)                                                                                                                                                    cATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCGGGGCGGTTTTCAGCACCCAGACACGTCCATa  >  1:85223/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                     CACCTCAGAATTAAAAAGGGCGAGGTTATCCCTCACCCTAAACGCATAAATGCCTGATGCGCTACGCTTATCAGGCCTACATAACTCCTGCAATATTTTGGATTTGCATGATTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGCGCACTTAGTCAATAATCAGGATGTGAGGTTACCCCTCACCCTGTCATATCCGTAAAAACGGCATACAGAATATCACATCAGCCGCTAAAGACGTTACCTGCGCCCGGGGCGGTTTTCAGCACCCAGACACGTCCATA  >  NC_000913_3_pae_tpiA/2945845‑2946140

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.