New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 3674369	21 (0.810)	4 (0.160)	4/300	NT	14.1%	coding (187/573 nt)	PP_3238	putative Transcriptional regulator PyrR
	?	AE015451	= 3674401	29 (1.190)					coding (155/573 nt)	PP_3238	putative Transcriptional regulator PyrR

CACCCAGTTCGGCGAGGTAGGCGCAGGTGCGTAGCAGAGAGTGCCCTTCGTAGAGCACGTCATCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGATTCATGGTGTTTTTCCTTTATTGGATATCACTCTGTTCGGGAGCCTACCCGGG  >  AE015451/3674168‑3674603                                                                                                                                                                                                          |                                                                                                                                                                                                                                           cACCCAGTTCGGCGAGGTAGGCGCAGGTGCGTAGCAGAGAGTGCCCTTCGTAGAGCACGTCATCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCg                                                                                                                                                                                                           <  1:492454‑M2/235‑2 (MQ=255)                                      agagTGCCCTTCGTAGAGCACGTCATCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCa                                                                                                                                                                     >  1:438281/1‑236 (MQ=255)                                                       gCACGTCATCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTccc                                                                                                                                                                                          >  2:505927/1‑196 (MQ=255)                                                              aTCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCGGGTCGTCTGCATAGCGCTTGACCTTGATCGGGCAGAGCGGCCAGTGCgcagca                                                                                                                                                                                                                                           >  2:509/1‑142 (MQ=255)                                                              aTCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAg                                                                                                                                              >  1:354356/1‑235 (MQ=255)                                                                 gacgacCCGCAAGGTGGTTCCGGCACGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCACGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGtt                                                                                                                                                                                                                  <  1:434371/164‑1 (MQ=255)                                                                   ccaccaGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGa                                                                                                                                                                               <  1:349872/197‑1 (MQ=255)                                                                        aGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAAt                                                                                                                                                                             >  2:375257/1‑194 (MQ=255)                                                                          cAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGTTCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCgctgcgccattgccgctct                                                                                                                                                                                         >  1:509‑M2/1‑161 (MQ=255)                                                                                                aGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGAGCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCgctgcgccattgccgctctacccgatcaag                                                                                                                                                                              >  2:414795‑M2/1‑139 (MQ=255)                                                                                                           ttCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGAt                                                                                                <  1:477620/236‑1 (MQ=255)                                                                                                                      gggTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTc                                                                                      <  1:153237/234‑1 (MQ=255)                                                                                                                                agtATGCGCATGCAAGAGGCGCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATg                                                                                                                                                                            <  2:1237/139‑1 (MQ=255)                                                                                                                                     gcgcATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGa                                                                                                                    >  2:153233/1‑190 (MQ=255)                                                                                                                                         aTGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATg                                                                  >  1:151448/1‑236 (MQ=255)                                                                                                                                             aaGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGTGTAGAGCGGCAATGGCGCAGCgcctgcaactgcacctgcaagcgctgaacggtgctgcgccattgccgctctacc                                                                                                                                                                                      >  1:253412‑M1/1‑62 (MQ=255)                                                                                                                                             aaGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGt                                                                                                                                                                                                                                       >  2:488388/1‑67 (MQ=255)                                                                                                                                             aaGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGt                                                                                                                                                                                                                                       <  1:488392/67‑1 (MQ=255)                                                                                                                                             aaGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCCGATCGTCTTCGTCATACAGGCGAACCCTCGCTGGAg                                                               >  2:390790/1‑235 (MQ=255)                                                                                                                                                agGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCgg                                                            <  1:384100/235‑1 (MQ=255)                                                                                                                                                      aGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGAtt                                                     >  1:516869/1‑236 (MQ=255)                                                                                                                                                            tcTGCATAGCGCTTGACCTGGAGGGGGTAGAGCGGCAATGGCGCAGCCCCGTTCAGTGCTTGCAGGTGCCGTTGCAGGCGCTGCGCCAGCGGCTCACCAcgcc                                                                                                                                                                                    <  2:102648/103‑1 (MQ=255)                                                                                                                                                             cTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCGCCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCgctgcgccattgccgctctacccgatcaaggtcaagcg                                                                                                                                                                      >  1:325832‑M2/1‑78 (MQ=255)                                                                                                                                                                cATAGCGCTTGACCTTGATCGGGTAGCGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTCGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGc                                                              <  1:175936/217‑1 (MQ=255)                                                                                                                                                                     cgcTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCgcctgcaactgcacctgcaagcactgaacggcgctgcgccattgccgctctacccgatcaaggtcaagcgctatgcag                                                                                                                                                              >  1:325832‑M1/1‑38 (MQ=255)                                                                                                                                                                         tGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGATTCATGGTGTTTTTCCTTTAt                                  <  1:288287/236‑1 (MQ=255)                                                                                                                                                                             cTTGATCGGGTAGAGCGGCAATGGCGCAGCgcctgcaactgcacctgcaagcactgaacggtgctgcgccattgccgctctacccgctcaaggtcaagcgctatgcagacgacctgagcctcttgcatgcgcatactcaactcaccgaaaacccggaactcgccaagct                                                                                                 >  2:414795‑M1/1‑30 (MQ=255)                                                                                                                                                                             cTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGATTCATGGTGTTTTTCCTTTATTgg                               >  1:188970/1‑235 (MQ=255)                                                                                                                                                                                     ggTAGAGCGGCAATGGCGCAGCACCGTTCAGCGCTTGCAGGTGCAGTTGCAGGCgctgcgccattgccgctctacacgatcaaggtcaagcgctatgcagacgacctgagcctctt                                                                                                                                              >  1:253412‑M2/1‑54 (MQ=255)                                                                                                                                                                                      gTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGcc                                                                                                                         <  1:31046/136‑1 (MQ=255)                                                                                                                                                                                        agagCGGCAATGGCGCAGCgcctgcaactgcacctgcaagcactgaacggtgctgcgccattgccgctctacccgaacaaggtcaagcgctatgcagacgacctgagcctcttgcatgcgcatactcaactcaccgaaaacccggaactcgccaagctcgaccttgccggaaccaccttg                                                                           >  1:509‑M1/1‑19 (MQ=255)                                                                                                                                                                                         gagCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTAGCAGCGCGACtt                                                                                                                                                            >  2:107586/1‑98 (MQ=255)                                                                                                                                                                                                  tGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGGTc                                                                                               >  1:407068/1‑150 (MQ=255)                                                                                                                                                                                                      gcagcaCCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGATTCATGGTGTTTTTCCTTTATTGGATATCACTCTGTTCGGGAGCCTAcc      <  1:375261/235‑1 (MQ=255)                                                                                                                                                                                                       cagcaCCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGATTCATGGTGTTTTTCCTTTATTGGATATCACTCTGTTCGGGAGCCTACCCg    >  1:392102/1‑236 (MQ=255)                                                                                                                                                                                                         gcaCCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAgg                                                                               <  2:151444/159‑1 (MQ=255)                                                                                                                                                                                                          cgcctgcaactgcacctgcaagcactgaacggtgctgcgccattgccgctctacccgatcaaggtcaagcgctatgcagacgacctgagcctcttgcatgcgcatactcaactcaccgaaaacccggaactcgccaagctcgaccttgccggaaccaccttgctggtggtcgatgacgtgctctacgaagggcactctctgctacgcacctgcgcctacctcgccgaactgggtg  <  1:492454‑M1/235‑235 (MQ=255)                                                                                                                                                                                                          |                                                                                                                                                                                                                                           CACCCAGTTCGGCGAGGTAGGCGCAGGTGCGTAGCAGAGAGTGCCCTTCGTAGAGCACGTCATCGACCACCAGCAAGGTGGTTCCGGCAAGGTCGAGCTTGGCGAGTTCCGGGTTTTCGGTGAGTTGAGTATGCGCATGCAAGAGGCTCAGGTCGTCTGCATAGCGCTTGACCTTGATCGGGTAGAGCGGCAATGGCGCAGCACCGTTCAGTGCTTGCAGGTGCAGTTGCAGGCGCTGCGCCAGCGGCTCACCACGCCGCTGAATGCCTACCAGCGCGACTTCAGACGTAGGCAAGCAGGCCATGGCCTGGCGGGCCATCGAGCGCAGCACACTGTCCAGATCGTCTTCGTCATACAGGCGAACCCTCGATGGAGCGGGGCGATTCATGGTGTTTTTCCTTTATTGGATATCACTCTGTTCGGGAGCCTACCCGGG  >  AE015451/3674168‑3674603

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ 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.