New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	225468 =	20 (0.160)	22 (0.190)	18/242	10.9	54.2%	intergenic (+11/‑32)	ileV/alaV	tRNA‑Ile/tRNA‑Ala
	?	NC_000913_3_pae_tpiA	= 3427068	NA (NA)					intergenic (‑35/+8)	alaU/ileU	tRNA‑Ala/tRNA‑Ile
Rejected: Coverage evenness skew score above cutoff.

AACCTTTGCAGGTACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/225625‑225468 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑caaatttgcACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAGTGTA  <  NC_000913_3_pae_tpiA/3427068‑3426920                                                                                                                                                                                                                                                                                                                     AACCTTTGCAGGTACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTC                                                                                                                                                               <  3:124299/150‑1   CCTTTGCAGGTACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAA                                                                                                                                                             >  4:442767/1‑150    CTTTGCAGGTACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAA                                                                                                                                                            <  1:774816/150‑1       TGCAGGTACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTT                                                                                                                                                         <  2:785313/150‑1             TACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGGTGAAACCTCTTCAACTTTtccggg                                                                                                                                                   >  4:665533/1‑144                      AAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGCCCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGGTAAAACCTCTTCAAATTTGCACGGCAAATTTGA                                                                                                                                          <  1:899579/150‑1                                         ACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAAT                                                                                                                                                           <  4:459874/114‑1                                         ACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAAT                                                                                                                                                           >  3:459874/1‑114                                            ACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTAT                                                                                                                    <  1:367519/150‑1                                                     GTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGCACAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATA                                                                                                           <  4:78962/150‑1                                                               GCGGGATCGAACCGCAGACCTCCTGCGTGCAGAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC                                                                                                                                                       >  1:1409542/1‑96                                                               GCGGGATCGAACCGCAGACCTCCTGCGTGCAGAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC                                                                                                                                                       <  2:1409542/96‑1                                                                       GAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTT                                                                                                                                                         >  1:24/1‑86                                                                       GAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTT                                                                                                                                                         <  2:24/86‑1                                                                        AACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGA                                                                                               <  1:397324/143‑1                                                                        AACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGA                                                                                               >  2:397324/1‑143                                                                        AACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTCCAAATTTGCACGGCAAATTTGAA                                                                                                                                         >  1:174200/1‑101                                                                        AACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTCCAAATTTGCACGGCAAATTTGAA                                                                                                                                         <  2:174200/101‑1                                                                           CGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGA                                                                                                                                          <  1:458032/97‑1                                                                           CGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGA                                                                                                                                          >  2:458032/1‑97                                                                                  CTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAA                                                                                                                                         <  2:962067/91‑1                                                                                  CTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAA                                                                                                                                         >  1:962067/1‑91                                                                                                GCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTCCAAATTTGCACGGCAAATTTGAAGAGGTTTTAAC                                                                                                                              >  2:901440/1‑88                                                                                                GCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTCCAAATTTGCACGGCAAATTTGAAGAGGTTTTAAC                                                                                                                              <  1:901440/88‑1                                                                                                  AGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGA                                                                                                                                          <  4:118823/74‑1                                                                                                  AGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGA                                                                                                                                          >  3:118823/1‑74                                                                                                   GGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACAT                                                                                                                         <  2:954765/90‑1                                                                                                   GGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACAT                                                                                                                         >  1:954765/1‑90                                                                                                      GCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTA                                                                                                                            <  2:347003/84‑1                                                                                                      GCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTA                                                                                                                            >  1:347003/1‑84                                                                                                         CTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTCCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGG                                                                                                 <  4:77604/108‑1                                                                                                         CTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTCCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGG                                                                                                 >  3:77604/1‑108                                                                                                                       ATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACC                                         >  4:150800/1‑150                                                                                                                                                      CAAATTTGCACGGCGAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTC          >  4:688617/1‑150                                                                                                                                                      CAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTC          >  1:732916/1‑150                                                                                                                                                      CAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTA                         <  3:437836/135‑1                                                                                                                                                      CAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTA                         >  4:437836/1‑135                                                                                                                                                       AAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGA                                                                        <  2:551581/87‑1                                                                                                                                                       AAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGA                                                                        >  1:551581/1‑87                                                                                                                                                       AAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTG                                                                                 <  4:888196/78‑1                                                                                                                                                       AAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTG                                                                                 >  3:888196/1‑78                                                                                                                                                        AATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCT                                                                   >  3:756095/1‑91                                                                                                                                                        AATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCT                                                                   <  4:756095/91‑1                                                                                                                                                         ATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGA       <  1:489157/150‑1                                                                                                                                                          TTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAG      <  2:732916/150‑1                                                                                                                                                          TTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAA                    <  2:341485/136‑1                                                                                                                                                          TTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAA                    >  1:341485/1‑136                                                                                                                                                           TTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGAAAAAAAAAAAAAAATACTTCAGAGT     <  4:198446/150‑1                                                                                                                                                            TGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAGTG    <  1:1334386/150‑1                                                                                                                                                             GCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTTGGAGAGCGCCTGATTTGCACGCAGGAGGTCTGCGGTGCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAGTGT   <  3:244793/150‑1                                                                                                                                                             GCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAGTGT   >  4:314211/1‑150                                                                                                                                                              CACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAGTGTA  <  4:211116/150‑1                                                                                                                                                              CACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGT                              >  4:292390/1‑122                                                                                                                                                              CACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGT                              <  3:292390/122‑1                                                                                                                                                                                                                                                                                                                     AACCTTTGCAGGTACACTCTGAAGTATTTTTTATTTAACCACTACAGAGATGGTGGAGCTATGCGGGATCGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/225625‑225468 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑caaatttgcACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCAGAGTGTA  <  NC_000913_3_pae_tpiA/3427068‑3426920

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