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.

GTCACATAGCCGCAGGACTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCAAAAAA  >  NC_010473/3837915‑3838305                                                                                                                                                                                                          |                                                                                                                                                                                                      gtCACATAGCCGCAGGACTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccat                                                                                                                                                                                                   >  1:11174S190‑M1/1‑196 (MQ=255)         gCCGCAGGACTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTcccatcacttct                                                                                                                                                                                           >  1:29533S50‑M1/1‑188 (MQ=255)                  cTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCTGCTTAAGAGA‑‑CTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGTGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCAtt                                                                                                                                                                               <  1:20324S35/200‑1 (MQ=255)                           cTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTcgc                                                                                                                                                                       <  1:24481S17/200‑1 (MQ=255)                                  aaGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCT‑‑‑‑‑‑‑‑‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCC‑‑ATCACTTCTTTCCCCATTTT‑GTCGCGTC‑‑GATGGTAGCGCa                                                                                                                                                      >  1:7499S28/1‑200 (MQ=255)                                                  tctTATTTAAACCAGCCAGCTCCGAAA‑ATTAGCCAACGGACAACC‑CCTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttcttcttcccattttgtcgcgtcctgatggtagcgcaaagtgtgccg                                                                                                                                                >  1:1512S9‑M1/1‑145 (MQ=255)                                                   ctTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGtgtg                                                                                                                                               >  1:27708S72/1‑200 (MQ=255)                                                                  cagcTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGGTCTTCCCGGGCCGGACGCTCTTTTTTCCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCAc                                                                                                                                    <  1:18767S47/200‑1 (MQ=255)                                                                  cagcTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcg                                                                                                                                  >  1:15433S47‑M1/1‑131 (MQ=255)                                                                    gcTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTCTTTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaaatatgccgtagttcacgatctcga                                                                                                                                 >  1:10719S18‑M1/1‑130 (MQ=255)                                                                      tCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTC‑GG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTcccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacag                                                                                                                             >  1:7225S72‑M1/1‑126 (MQ=255)                                                                            aGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCCCATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGAt                                                                                                                       <  1:13963S10/200‑1 (MQ=255)                                                                                            aaCCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAAATAATTTATAACCAATTGa                                                                                                      <  1:20506S21/200‑1 (MQ=255)                                                                                               cGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGAttt                                                                                                   <  1:12340S21/200‑1 (MQ=255)                                                                                                 tttGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTT‑CCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTa                                                                                                <  1:6326S8/200‑1 (MQ=255)                                                                                                               cAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgcgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcat                                                                                     >  1:4509S11‑M1/1‑86 (MQ=255)                                                                                                                    tctcAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATtcat                                                                               <  1:29466S25/200‑1 (MQ=255)                                                                                                                     ctcAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTT‑CCC‑ATCACTTCTTTCCCCATTTG‑TTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCatcaa                                                                            >  1:19416S15/1‑200 (MQ=255)                                                                                                                         aTCAGCATCAAACCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCC‑‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCatcaatca                                                                         >  1:10971S8/1‑200 (MQ=255)                                                                                                                         aTCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagat                                                                           >  1:16739S36‑M1/1‑76 (MQ=255)                                                                                                                             gCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGAtt                                                                     <  1:28459S36/200‑1 (MQ=255)                                                                                                                               aTCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTcccattccatcctctccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttg                                                                     <  1:4399S4‑M1/200‑131 (MQ=255)                                                                                                                                tCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGcc                                                                  <  1:19151S6/200‑1 (MQ=255)                                                                                                                                   a‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTg                                                               <  1:17573S63/200‑1 (MQ=255)                                                                                                                                        gcgAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagattcacgatctcaacaataatttataaccaaactgatttttatgtcttttgaaattcatcgatcagattgccttgttaaaa                                                             >  1:11858S6‑M1/1‑62 (MQ=255)                                                                                                                                             aCAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCCTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGt                                                      >  1:32575S22/1‑200 (MQ=255)                                                                                                                                                 aCTCTGG‑CTTCT‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtccgacggtagtgcaaagtgtgccgtagttcacgatctccagcagataatttataaccaattgatttttcatgctctttaaattcatcaatcagattgccttgttaaaaagtgatcgat                                                    <  1:15463S8‑M1/200‑148 (MQ=255)                                                                                                                                                    ctGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCG‑ATCACTTCTTTCCG‑ATTT‑‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGC‑‑‑AGTTTACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATAtt                                          <  1:19429S2/200‑1 (MQ=255)                                                                                                                                                     tGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTTTC‑TTTTTcccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttgttaaaaagtgatcgatata                                                >  1:24485S2‑M1/1‑49 (MQ=255)                                                                                                                                                           tCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATAttt                                         >  1:11736S24/1‑200 (MQ=255)                                                                                                                                                            cc‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTg                                        <  1:26393S12/200‑1 (MQ=255)                                                                                                                                                                 gCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttgttaaaaagtgatcgatatatttgaaatca                                       >  1:11791S26‑M1/1‑40 (MQ=255)                                                                                                                                                                      aCGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCC‑‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGt                               >  1:14503S118/1‑200 (MQ=255)                                                                                                                                                                         ctctTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgc                               >  1:4851S69‑M1/1‑32 (MQ=255)                                                                                                                                                                         ctctTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgc                               >  1:17437S53‑M1/1‑32 (MQ=255)                                                                                                                                                                                      cgcCATCTCGTTCTC‑TTTTTccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaattt                   >  1:26400S11‑M1/1‑20 (MQ=255)                                                                                                                                                                                                    c‑tTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCaaaaa   <  1:1503S22/200‑1 (MQ=255)                                                                                                                                                                                                        tttccatcacttctttccccattttgtcgcgtcctgatggtagcgcaaagtgtgccgtagttcacgatctcgacagataatttataaccaattgatttttatgtcttttgaaattcatcaatcagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaattttaagccaaaaaagcgat  >  1:28508S81‑M1/1‑3 (MQ=255)                                                                                                                                                                                                          |                                                                                                                                                                                                      GTCACATAGCCGCAGGACTGTAATCCCTGCAATAAGCGATGGACGGTACTCTTATTTAAACCAGCCAGCTCCGAAAGATGCGCCAACGGACAACCGTTTGGATAGTTGCTCAAAATCTCAATCAGCATCAA‑CCCGCGAAACAGACTCTGG‑CTTCC‑‑GGCTGGACGCTCTTTTT‑CCTGCGCCATCTCGTTCTC‑TTTTTTTCCC‑ATCACTTCTTTCCCCATTTT‑GTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCAGATTGCCTTGTTAAAAAGTGATCGATATATTTGAAATCAAGTTTCGCATATTGAAATTTTAAGCCAAAAAA  >  NC_010473/3837915‑3838305

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.