New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	4261390 =	30 (0.750)	3 (0.080)	3/312	NT	11.1%	coding (1372/2460 nt)	PP_3734	putative ABC transporter, permease protein
	?	AE015451	4261506 =	20 (0.540)					coding (1256/2460 nt)	PP_3734	putative ABC transporter, permease protein

CGCCAGCCGGGCATGACCACGCTGGCCCCGGGCTGCTGCTTGAGCCACTCGACTATCTGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAGCATGGCGAACGCGCTAAGCAAGCCAGCCCCGAAGACACCACAGCCCAAGGCCAGCAACAGCAGCAGGCCCGCTAGCAAAGCCTGCCGTTGCAACCATGGCCCCT  >  AE015451/4261167‑4261620                                                                                                                                                                                                                                |                                                                                                                                                                                                                                       cgcCAGCCGGGCATGACCACGCTGGCCCCGGGCTGCTGCTTGAGCCACTCGACTATCTGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCGTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCt                                                                                                                                                                                                                            >  1:118318/1‑236 (MQ=255)          ggCATGACCACGCTGGCCCCGGGCTGCTGCTTGAGCCACTCGACTATCTGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTggcggcggcgctgctg                                                                                                                                                                                                                   <  1:413997/236‑11 (MQ=255)                                      gctTGAGCCACTCGACTATCTGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCCGGCGGCTGTCAGCCACGAACCATTGCGCCCAt                                                                                                                                                                                                   >  2:498401/1‑224 (MQ=255)                                                  cGACTATCTGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCgcc                                                                                                                                                                              <  2:699807/233‑1 (MQ=255)                                                         gcccggttgcctttgctggcgctggcgcaaccccaggcctggcgactggcgcaggggccatggttgcaacggcaggctttgctagcgggcctgctgctgttgctggccttgggctgtggtgtcttcggggctggcttgcttagcgcgttcgccatgctggcagggttGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAgccaggc                                                                                                                                                                      <  1:545449‑M1/67‑1 (MQ=255)                                                          tGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAgccaggccag                                                                                                                                                                   <  1:634920/236‑1 (MQ=255)                                                           gCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCa                                                                                                                                                                                                             <  2:142485/193‑1 (MQ=255)                                                           gCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGt                                                                                                                                                                  >  1:279497/1‑236 (MQ=255)                                                                  ttGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAgccaggccag                                                                                                                                                                   <  2:609236/228‑1 (MQ=255)                                                                  ttGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAgccaggccag                                                                                                                                                                   >  1:609237/1‑228 (MQ=255)                                                                  tggggCCGTGTCCCGCGGGGTGACATACAGGTCGGCCGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCa                                                                                                                                                                                                                    <  1:166999/177‑1 (MQ=255)                                                                      gCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAgccaggc                                                                                                                                                                      >  1:674250/1‑221 (MQ=255)                                                                      gCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGACAGCCACGAACCATTGCGCCAATGGCCgggt                                                                                                                                                                                           >  1:35779/1‑198 (MQ=255)                                                                                        aCATACAGGGCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGccctgagcct                                                                                                                                                                                                             <  2:694802/164‑9 (MQ=255)                                                                                           tACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCaa                                                                                                                                                                                                    >  2:162272/1‑170 (MQ=255)                                                                                                tggcgactggcgcaggggccatggttgcaacggcaggctttgctagcgggcctgctgctgttgctggccttgggctgtggtgtcttcggggctggcttgcttagcgcgttcgccatgctggcagggttgctgct                                                                                                                                                                                                                                   >  2:42874‑M1/129‑134 (MQ=255)                                                                                                   ggcggAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCgccagcca                                                                                                                                                                         >  1:277769/1‑189 (MQ=255)                                                                                                   ggcggAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCgccagcca                                                                                                                                                                         <  2:277768/189‑1 (MQ=255)                                                                                                   ggcggAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCAGCTGGCGGCTGTCAGCCACGAACCATTg                                                                                                                                                                                                          >  1:321349/1‑156 (MQ=255)                                                                                                        agagGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACCGCAACACTGGCAGCCAGGGCCAGCAAACGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGACCAGTACCAGATCg                                                                                                                                                         >  2:417164/1‑200 (MQ=255)                                                                                                                  gTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGca                                                                                                                                                                                               >  1:12607/1‑151 (MQ=255)                                                                                                                       gttgcaacggcaggctttgctagcgggcctgctgctgttgctggccttgggctgtggtgtcttcggggctggcttgcttagcgcgttcgccatgctggcagggttGCTGCTggcggc                                                                                                                                                                                                                             <  2:644609‑M1/12‑1 (MQ=255)                                                                                                                                    cGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGGCGCGCCAgccaggc                                                                                                                                                                      >  2:138933/1‑159 (MQ=255)                                                                                                                                        ttGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCa                                                                                                                                                                                        <  2:544797/137‑1 (MQ=255)                                                                                                                                              aaaCCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGGCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAGCATGGCGAACGCGCTAAGCAagccagc                                                                               <  1:642665/236‑1 (MQ=255)                                                                                                                                                       tgctgttgctggccttgggctgtggtgtcttcggggctggcttgcttagcgcgttcgccatgctggcagggttGCTGCTgg                                                                                                                                                                                                                                 >  2:423988‑M1/74‑81 (MQ=255)                                                                                                                                                       tgctgttgctggccttgggctgtggtgtcttcggggctggcttgcttagcgcgttcgccatgctggcagggttGCTGCTgg                                                                                                                                                                                                                                 <  1:423989‑M1/8‑1 (MQ=255)                                                                                                                                                             ctgcCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAgccaggcca                                                                                                                                                                    <  1:533637/136‑1 (MQ=255)                                                                                                                                                              tgcCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCCGCCACCCTGCCAGCATGGCg                                                                                                   >  1:22167/1‑200 (MQ=255)                                                                                                                                                               gcCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGGGGCAACGACGCGCCAGCCAGGCCAGTAc                                                                                                                                                                >  2:83745/1‑138 (MQ=255)                                                                                                                                                                cccACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAAc                                                                                                                                                                                                               <  1:327623/90‑1 (MQ=255)                                                                                                                                                                        aaCACTGGCAGCCGGGGCCAGCAAAAGGGCGCCCACCGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGCCGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAgcg                                                                                                                                   <  2:85748/158‑1 (MQ=255)                                                                                                                                                                         acacTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAGCATGGCGAACGCGCt                                                                                           <  1:162272/197‑1 (MQ=255)                                                                                                                                                                                 aGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGa                                                                                                                                                        <  1:518236/128‑1 (MQ=255)                                                                                                                                                                                       ggggctggcttgcttagcgcgttcgccatgctggcagggttGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGCGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAg                                                                                                          <  1:512417‑M1/127‑1 (MQ=255)                                                                                                                                                                                       ggCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAGCATGGCGAACGCGCTAAGCAAGCCAGCCCCGAAGACACCACAGCCCAAGGCCAGc                                                   <  2:279496/223‑1 (MQ=255)                                                                                                                                                                                               cttgcttagcgcgttcgccatgctggcagggttGCTGCCGGCGGCTGCCAGCCCCGAACCATTGCGCcac                                                                                                                                                                                                    <  2:608375‑M1/37‑2 (MQ=255)                                                                                                                                                                                                                               aGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAGCATGGCGAACGCGCTAAGCAAGCCAGCCCCGAAGACACCACAGCCCAAGGCCAGCAACAGCAGCAGGCCCGCTAGCAAAGCCTGCCGTTGCAACCATGGCCCCt  <  1:109587/232‑1 (MQ=255)                                                                                                                                                                                                                                |                                                                                                                                                                                                                                       CGCCAGCCGGGCATGACCACGCTGGCCCCGGGCTGCTGCTTGAGCCACTCGACTATCTGCAAGCCTTGGGCCGTGTCCCGCGGGGTGACATACAGGTCGGCGGAGAGGCGCAGGTCAAGCCAACCGACAAACGTCTTGCGAAAACCCTCGGTCATGCTGCCCACGCCAACACTGGCAGCCAGGGCCAGCAAAAGGGCGACCAACGCCAGGCTCAGGGCTGGCAGCTGCTGGCGGCTGTCAGCCACGAACCATTGCGCCAATGGCCGGTGGCAACGACGCGCCAGCCAGGCCAGTACCTGATCGAGCAAGGCCGGCAACAGCAGCGCCGCCGCCAGCAGCAACCCTGCCAGCATGGCGAACGCGCTAAGCAAGCCAGCCCCGAAGACACCACAGCCCAAGGCCAGCAACAGCAGCAGGCCCGCTAGCAAAGCCTGCCGTTGCAACCATGGCCCCT  >  AE015451/4261167‑4261620

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.