New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4593859	42 (0.740)	4 (0.090)	3/212	NT	10.9%	intergenic (+165/+134)	mccA/PP_4068	methylcrotonyl‑CoA carboxylase biotin‑containing subunit alpha/Cro/CI family transcriptional regulator
	?	NC_002947	= 4593904	31 (0.670)					intergenic (+210/+89)	mccA/PP_4068	methylcrotonyl‑CoA carboxylase biotin‑containing subunit alpha/Cro/CI family transcriptional regulator

GAGCGGGTTTACCCGCGAAAGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCACCCGCACGACCACCCCAAGAAATTCGCAACCCTCTT  >  NC_002947/4593759‑4594045                                                                                                                                                  |                                                                                                                                              gAGCGGGTTTACCCGCGAAAGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtg                                                                                                                                             <  2:177550‑M2/148‑3 (MQ=255)     gggTTTACCCGCGAAAGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACTTCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtgtagga                                                                                                                                        >  1:177550‑M2/1‑142 (MQ=255)               gcgAAAGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttac                                                                                                                              <  5:94954‑M2/149‑18 (MQ=255)                cgAAAGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttacc                                                                                                                             >  6:94954‑M2/1‑131 (MQ=255)                   aaGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttacccgc                                                                                                                          >  2:328710‑M2/1‑128 (MQ=255)                       gccgggccTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACAGTATTCGCGGGTAAAAACGCTACTACATACGAAAGGGGGTGGACACATGTTGGTGATTAGGCGCATGCCGAGtgtaggagcgggtttagccgcga                                                                                                                        <  6:132733‑M2/147‑24 (MQ=255)                       gccgggccTGCTGGCCAAACTCAACCCGACGCTCACCGTTGCCGCCGCTACAGTATTCGAGGGTAAAACCGATACTACATCCGATCGGGGGTGGACACATGATGGTGAATATGCGCAGGACGCGGGTAGGAGCGGGTTTACCCGCGa                                                                                                                        >  6:260881/1‑147 (MQ=21)                          gggccTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAggg                                                                                                                   <  4:165688/149‑1 (MQ=255)                                 ctgGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGccc                                                                                                            <  7:259972/149‑1 (MQ=255)                                      cAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCctgctg                                                                                                       >  7:243819/1‑149 (MQ=255)                                          ctctACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATTATGGTGATAAAGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCAGGCCCTGCTGGcc                                                                                                    >  5:372184/1‑148 (MQ=21)                                           tctACCCGGCGCTCCCCGTTGCCGCCGCTACCGTATTCGCGGTTAAACCCGCTCCTACATCCGAGCGGGGGTGGACACATGTTGGGGATTCGGCGCCGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAgg                                                                                                                    <  8:266513/131‑1 (MQ=21)                                               cccGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTc                                                                                              <  8:243819/149‑1 (MQ=255)                                                ccttCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTTGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTcc                                                                                             <  7:318553/146‑1 (MQ=255)                                                ccGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAAACCGCTACTACAACCCAACCGGGGGGGACACCTGTTGGTGATTATGCGCAGGCCCCGTGTAGGCGCGGGTTTACCCGCGCAAGGGCCGCGCCTGCTGGCCAACTTc                                                                                              >  2:193322/1‑148 (MQ=25)                                                         agcGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACccgcc                                                                                      <  1:149287/145‑1 (MQ=255)                                                          ccGTTGCCGCCGCTCCCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGCCGCAGGCCGCGGGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGtt                                                                                   <  5:260881/149‑1 (MQ=255)                                                             ttGCCGCCGCTACCGTATTCGCGGGTAAACNCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCAc                                                                                >  1:32306/1‑149 (MQ=255)                                                             ttGCCGCCGCTACCGTATTCGCGGGTAAACACGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCAc                                                                                >  1:26970/1‑149 (MQ=255)                                                                  gccgcTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGAGCGGGTTTTTACATATTTTGTTTATTAGTCGCAGGCGGCGTTTAGTAGCGGGTTTACCCTATAAATGGCCGGGCCTTCTGGATAAGTTCAACCCGCCGTTCACCGTTg                                                                           <  6:372184/149‑1 (MQ=16)                                                                       tACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATGGGGGGTGGACACAGGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTAACCGCGAAAGGGCCGGCCCTGCTGGGCAACTTCAACCCGGCGTTCACCGGTggcgc                                                                       >  3:270766/1‑148 (MQ=21)                                                                         ccGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCa                                                                     <  5:132733/148‑1 (MQ=255)                                                                            tATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCacta                                                                  >  4:280060/1‑148 (MQ=255)                                                                              ttCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTATACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTgccg                                                                        <  6:88099/140‑1 (MQ=255)                                                                              ttCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTATACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTgccg                                                                        >  5:88099/1‑140 (MQ=255)                                                                                  ggggTAAACCGGCTCGAACATCCGTTCGGGGGTGTACACATGTTGGTGATTAGGCGCAGGCCGGGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCaaa                                                            <  8:132347/147‑1 (MQ=21)                                                                                   gggTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCaaa                                                            >  7:132347/1‑147 (MQ=255)                                                                                     gTAAAGCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCt                                                        >  7:331151/1‑149 (MQ=255)                                                                                       aacccccCTCCTACAACCCATCGGGGCTTTACACATGTTGGTGATAAGGCGCAGGCAGCGGGTAGGAGCGGGTTTACCCGCTAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCttt                                                      <  4:270766/146‑1 (MQ=21)                                                                                        aaCCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCttt                                                      >  4:179781/1‑148 (MQ=255)                                                                                         aCCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCATGCTGGCGAACTTCCACCCGCCGTTCACCGTTGCCGCAACTACTAAAACCCTGTc                                                     >  5:269231/1‑148 (MQ=21)                                                                                           ccGCTCCTACATCCGATCGGGGGTGGACGCATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttacccgcgaatacggtagcggcggcaacggtgagcgacgggtagagattggccagcaggccc                                                                   >  3:12970‑M2/1‑56 (MQ=255)                                                                                           ccGCTCCTACATCCGATCGGGGGTGGACGCATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttacccgcgaatacggtagcggcggcaacggtgagcgacgggtagagattggccagcaggccc                                                                   <  4:12970‑M2/132‑77 (MQ=255)                                                                                            cGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttacccgcgaatacggtagcggcggcaacggtgagcgacgggtagagattggccagcaggcccggccctttcgcgggtaaa                                                 <  7:302865‑M2/149‑95 (MQ=255)                                                                                            cGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGtgtaggagcgggtttacccgcgaatacggtagcggcggcaacggtgagcgacgggtagagattggccagcaggcccggccctttcgcgggtaaa                                                 <  7:307888‑M2/149‑95 (MQ=255)                                                                                            cGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCaaaa                                                 <  3:280060/149‑1 (MQ=255)                                                                                                            cGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGc                                              >  6:160749/1‑136 (MQ=255)                                                                                                            cGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGc                                              <  5:160749/136‑1 (MQ=255)                                                                                                                     acacATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCAccc                                   <  6:42769/138‑1 (MQ=255)                                                                                                                     acacATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCAccc                                   >  5:42769/1‑138 (MQ=255)                                                                                                                      cacaTGTTGGTTATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCACCCGCACGACCAccc                       <  1:193322/149‑1 (MQ=255)                                                                                                                               gTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCACCCGCACGACCACCCCAAGAAAtt              >  5:99125/1‑149 (MQ=255)                                                                                                                                tGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCACCCGCACGACCACCCCAAGAAATTc             <  3:179781/149‑1 (MQ=255)                                                                                                                                           aGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCACCCGCACGACCACCCCAAGAAATTCGCAACCCTCtt  >  5:255025/1‑149 (MQ=255)                                                                                                                                                  |                                                                                                                                              GAGCGGGTTTACCCGCGAAAGGGCCGGGCCTGCTGGCCAATCTCTACCCGTCGCTCACCGTTGCCGCCGCTACCGTATTCGCGGGTAAACCCGCTCCTACATCCGATCGGGGGTGGACACATGTTGGTGATTAGGCGCAGGCCGCGTGTAGGAGCGGGTTTACCCGCGAAAGGGCCGGCCCTGCTGGCCAACTTCCACCCGCCGTTCACCGTTGCCGCCACTACTCAAACCCTTTCAAAAAGCCCCATGCACCCGCACGACCACCCCAAGAAATTCGCAACCCTCTT  >  NC_002947/4593759‑4594045

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.