New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4583494	33 (0.550)	5 (0.100)	5/224	NT	17.2%	intergenic (‑67/+104)	treSB/glgE	bifunctional trehalose synthase B/maltokinase/alpha‑1,4‑glucan:maltose‑1‑phosphate maltosyltransferase
	?	NC_002947	= 4583555	20 (0.390)					intergenic (‑128/+43)	treSB/glgE	bifunctional trehalose synthase B/maltokinase/alpha‑1,4‑glucan:maltose‑1‑phosphate maltosyltransferase

AACGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATC  >  NC_002947/4583415‑4583700                                                                                                                                              |                                                                                                                                                     aaCGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTAGCGGAtaaacccg                                                                                                                                              <  7:4987‑M2/149‑9 (MQ=255)    gCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctc                                                                                                                                           <  7:142811‑M2/149‑12 (MQ=255)    gCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacacgctc                                                                                                                                           <  3:125384‑M2/149‑12 (MQ=255)        ggCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctcctac                                                                                                                                       <  5:237728‑M2/149‑16 (MQ=255)         gCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctcctacg                                                                                                                                      <  2:361664‑M2/149‑17 (MQ=255)                gCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑gggggggg                                                                                                                              >  2:314565/1‑149 (MQ=255)                     tCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑ggggggggggggg                                                                                                                         >  7:286329/1‑147 (MQ=255)                     tCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAAAAACCCGCGCCTAC‑GGGGGGGGGGGcc                                                                                                                         >  6:62898/1‑148 (MQ=255)                                  atgcaCAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAAccat                                                                                                           >  7:85236/1‑147 (MQ=255)                                                        tCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCCCC‑GTGTGAACCTTGTTTACGGGCTTTTTGGATgcg                                                                                     >  5:122749/1‑149 (MQ=38)                                                        tCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTAGATggg                                                                                     >  2:114947/1‑147 (MQ=255)                                                                ccGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCCCA‑GTCTGAACCTTGTTAAAGGGCTTTTTCGATGCGCCAGATGc                                                                             >  6:103323/1‑149 (MQ=255)                                                                   tAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGGTTTTTCGATGCGCCAGATGcgg                                                                           >  6:352773/1‑146 (MQ=255)                                                                     ttcgCGGGTAAACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGGACC‑GGAGGAACCTTGTTAACGGGCGTTTTAGATGCGCCAGATGCCCAAc                                                                        >  3:115469/4‑149 (MQ=37)                                                                      gAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctcctacgggggatcgagcaagctcggatgtctgtgcatgcaattgaaaggagtcgcacatggccaagc                                                                         <  5:260480‑M2/149‑78 (MQ=255)                                                                       aGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GGCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACgg                                                                      >  3:107541/1‑149 (MQ=255)                                                                        gCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctcctacgggggatcgagcaagctcggatgtctgtgcatgcaattgaaaggagtcgcacatcgccaagcgt                                                                       <  2:256442‑M2/149‑80 (MQ=255)                                                                         cGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctcctacgggggatcgagcaagctcggatgtctgtgcatgcaattgaaaggagtcgcacatggccaagcgtt                                                                      <  2:111722‑M2/149‑81 (MQ=255)                                                                         cGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑‑GGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑g                                                                  >  2:15312/1‑149 (MQ=255)                                                                           ggTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTACGGGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑g                                                                  >  3:273479/1‑149 (MQ=255)                                                                                  ccGCGAAGATGACACCGCGGTGCCGAGGTGAATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTGGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCAAgg                                                          >  5:329315/1‑149 (MQ=255)                                                                                    gcgAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTTGCGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑‑GGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGc                                                        >  1:72924/1‑149 (MQ=255)                                                                                    gcgAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAAAGGGGTTTTTCAATTCGCAAGATGCCCAACGCCA‑GGTGCCAGGGc                                                        >  6:121676/1‑149 (MQ=38)                                                                                          aTGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGGTGTATg                                                  >  7:36602/1‑149 (MQ=255)                                                                                                          gAGGTTCATGGCACCGGCTT‑CGCCGGTGTTCGAGGAtaaacccgctcctacgggggatcgagcaagctcggatgtctgtgcatgcaattgaaaggagtcgcacatggccaagcgttcccgcccggcagcctacatcgacgacccgctgt                                     >  6:260480‑M2/1‑36 (MQ=255)                                                                                                           aGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGGGCTATGCGCATCCATTGGGGCtt                                 >  6:82822/1‑149 (MQ=255)                                                                                                                cATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGGCCAGGTGGAAACGTTGTTAACGGGGTTTTTCGAGGCCCCTAAGCCCGAA‑GGCAGGGGGCCAGGGGTGAATGGGCAGCCATgggggttgggg                              >  2:100735/1‑141 (MQ=12)                                                                                                                  tGGCACCGGCTT‑CGCCGGTGTTCGCGGAtaaacccgctcctacgggggatcgagcaagctcggatgtctgtgcatgcaattgaaaggagtcgcacatggccaagcgttcccgcccggcagccttcatcgacgacccgctgtggtacaag                             >  1:111722‑M2/1‑28 (MQ=255)                                                                                                                          gCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GGATGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGGGACAGGGATAAATGCCAAACCATGGGGTATTCCCGTACCCCAACCa                  >  8:166902/1‑149 (MQ=255)                                                                                                                               cGCCGGTGTGCGCGGTTAAACCCGGGCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGCCCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCgg              <  5:121676/149‑1 (MQ=255)                                                                                                                                         cgcgGATAAACCCGCTCCTAC‑‑GGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTtca    <  1:15312/148‑1 (MQ=255)                                                                                                                                          gcgGATAAACCCGCTCCTAC‑‑GGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGCTCTATGCGCATCCATTGGTGCTTCCCGTACAACGACCAGCGGTGGCCGTtcatc  >  8:191807/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                     AACGCTTGGCCATGTGCGACTCCTTTCAATTGCATGCACAGACATCCGAGCTTGCTCGATCCCCCGTAGGAGCGGGTTTACCCGCGAAGATGACACCGCGGTGCCGAGGTGCATGGCACCGGCTT‑CGCCGGTGTTCGCGGATAAACCCGCTCCTAC‑GGGGGGGGGGGCACA‑GTCTGAACCTTGTTAACGGGCTTTTTCGATGCGCCAGATGCCGAACGGCA‑GGTGCCAGGGCTCTATGCGCATCCATTGGGTCTTGCCGTACCACGACCAGCGGTGGCCGTTCATC  >  NC_002947/4583415‑4583700

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.