New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_010473	= 3838110	21 (0.550)	17 (0.440)	16/398	2.1	44.7%	coding (23/849 nt)	yiaJ	IclR family transcriptional regulator YiaJ
	?	NC_010473	3838114 =	21 (0.550)					coding (19/849 nt)	yiaJ	IclR family transcriptional regulator YiaJ
Rejected: Unknown rejection reason.

GCCGCAGGACTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCAAAAAAGCGAT  >  NC_010473/3837923‑3838310                                                                                                                                                                                                     |                                                                                                                                                                                                            gtcacatagccgcaggactgtaatccctgcaataagcgatggacggtactcttatttaaaccagccagctccgaaagatgcgccaacggacaaccgtttggatagttgctcaaaatctcaatcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttCC‑At                                                                                                                                                                                                         >  1:11174S190‑M2/197‑200 (MQ=255)        gccgcaggactgtaatccctgcaataagcgatggacggtactcttatttaaaccagccagctccgaaagatgcgccaacggacaaccgtttggatagttgctcaaaatctcaatcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttcCC‑ATCActtct                                                                                                                                                                                                  >  1:29533S50‑M2/190‑200 (MQ=255)          cTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCTGCTTAAGAGA‑‑CTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGTGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCAtt                                                                                                                                                                                        <  1:20324S35/200‑1 (MQ=255)                   cTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTcgc                                                                                                                                                                                <  1:24481S17/200‑1 (MQ=255)                          aaGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCT‑‑‑‑‑‑‑‑‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCC‑‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTC‑‑GATGGTAGCGCa                                                                                                                                                               >  1:7499S28/1‑200 (MQ=255)                                           ctTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGtgtg                                                                                                                                                        >  1:27708S72/1‑200 (MQ=255)                                                    tcttatttaaaccagccagctccgaaaattagccaacggacaacccctggatagttgctcaaaatctcaatcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTTCTTCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCg                                                                                                                                                     >  1:1512S9‑M2/146‑200 (MQ=255)                                                          cagcTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGGTCTTCCCGGGCCGGACGCTCTTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCAc                                                                                                                                            <  1:18767S47/200‑1 (MQ=255)                                                                  cagctccgaaagatgcgccaacggacaaccgtttggatagttgctcaaaatctcaatcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCg                                                                                                                                     >  1:15433S47‑M2/132‑200 (MQ=255)                                                                   gctccgaaagatgcgccaacggacaaccgtttggatagttgctcaaaatctcaatcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctcttttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAATATGCCGTAG‑TTCACGATCTCGa                                                                                                                                    >  1:10719S18‑M2/131‑200 (MQ=255)                                                                    aGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCCCATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGAt                                                                                                                              <  1:13963S10/200‑1 (MQ=255)                                                                      tccgaaagatgcgccaacggacaaccgtttggatagttgctcaaaatctcaatcagcatcaacccgcgaaacagactcggcttccggctggacgctctttttcctgcgccatctcgttctctttttcCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAg                                                                                                                                >  1:7225S72‑M2/128‑200 (MQ=255)                                                                                    aaCCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAAATAATTTATAACC‑AATTGa                                                                                                            <  1:20506S21/200‑1 (MQ=255)                                                                                       cGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGAttt                                                                                                         <  1:12340S21/200‑1 (MQ=255)                                                                                         tttGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTT‑CCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑a                                                                                                     <  1:6326S8/200‑1 (MQ=255)                                                                                                            tctcAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATtcat                                                                                    <  1:29466S25/200‑1 (MQ=255)                                                                                                             ctcAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTT‑CCC‑ATCACTTCTT‑TCCCCATTTG‑TTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCatcaa                                                                                 >  1:19416S15/1‑200 (MQ=255)                                                                                                               caaaatctcaatcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTG‑CGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATtcat                                                                                    >  1:4509S11‑M2/87‑200 (MQ=255)                                                                                                                 aTCAGCATCAAACCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCC‑‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCatcaatca                                                                              >  1:10971S8/1‑200 (MQ=255)                                                                                                                     gCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGAtt                                                                          <  1:28459S36/200‑1 (MQ=255)                                                                                                                        tCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGcc                                                                       <  1:19151S6/200‑1 (MQ=255)                                                                                                                         atcagcatcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGAt                                                                           >  1:16739S36‑M2/77‑200 (MQ=255)                                                                                                                           a‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTg                                                                    <  1:17573S63/200‑1 (MQ=255)                                                                                                                              atcaacccgcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttcCC‑ATTCCATC‑C‑TCTCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCT‑GA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTg                                                                    <  1:4399S4‑M2/129‑1 (MQ=255)                                                                                                                                     aCAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCCTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGt                                                           >  1:32575S22/1‑200 (MQ=255)                                                                                                                                       gcgaaacagactctggcttccggctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGATTCACGATCTCAA‑CA‑ATAATTTATAACCAAACTGATTTTT‑ATGTCTTTTGAAATTCATCGATCAGATTGCCTTGTTaaaa                                                              >  1:11858S6‑M2/63‑200 (MQ=255)                                                                                                                                            ctGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCG‑ATCACTTCTT‑TCCG‑ATTT‑‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGC‑‑‑AG‑TTTACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATAtt                                               <  1:19429S2/200‑1 (MQ=255)                                                                                                                                                actctggcttctggctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCC‑GACGGTAGTGCAAAGTGTGCCGTAG‑TTCACGATCTCCAGCAGATAATTTATAACC‑AATTGATTTTTCATG‑CTCTTTAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGat                                                    <  1:15463S8‑M2/147‑1 (MQ=255)                                                                                                                                                   tggcttccggctggacgctctttttcctgcgccatctcgttttctttttcCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGatata                                                 >  1:24485S2‑M2/51‑200 (MQ=255)                                                                                                                                                   tCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATAttt                                              >  1:11736S24/1‑200 (MQ=255)                                                                                                                                                    cc‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTg                                             <  1:26393S12/200‑1 (MQ=255)                                                                                                                                                             gctggacgctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCa                                       >  1:11791S26‑M2/41‑200 (MQ=255)                                                                                                                                                              aCGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCC‑‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGt                                    >  1:14503S118/1‑200 (MQ=255)                                                                                                                                                                     ctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGc                               >  1:4851S69‑M2/33‑200 (MQ=255)                                                                                                                                                                     ctctttttcctgcgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGc                               >  1:17437S53‑M2/33‑200 (MQ=255)                                                                                                                                                                                 cgccatctcgttctctttttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAAttt                   >  1:26400S11‑M2/21‑200 (MQ=255)                                                                                                                                                                                            ctTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCaaaaa        <  1:1503S22/200‑1 (MQ=255)                                                                                                                                                                                                  tttCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCAAAAAAGCGAt  >  1:28508S81‑M2/4‑200 (MQ=255)                                                                                                                                                                                                     |                                                                                                                                                                                                            GCCGCAGGACTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTTCCC‑ATCACTTCTT‑TCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAG‑TTCACGATCTCGA‑CAGATAATTTATAACC‑AATTGATTTTT‑ATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCAAAAAAGCGAT  >  NC_010473/3837923‑3838310

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 50 ≤ 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.