New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3874929	38 (0.770)	4 (0.090)	3/240	NT	10.9%	intergenic (‑22/‑80)	ltg/xcpT	lytic transglycosylase/type II secretion pathway protein XcpT
	?	NC_002947	= 3874973	30 (0.650)					intergenic (‑66/‑36)	ltg/xcpT	lytic transglycosylase/type II secretion pathway protein XcpT

ATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGTCAACGCTTGTC  >  NC_002947/3874782‑3875069                                                                                                                                                    |                                                                                                                                             aTAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGc                                                                                                                                             >  5:204529/1‑149 (MQ=255) aTAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGG                                                                                                                                              <  5:146557‑M1/148‑1 (MQ=255)         gCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGAtg                                                                                                                                     >  2:293056/1‑149 (MQ=255)            cTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTgg                                                                                                                                  <  6:239479/149‑1 (MQ=255)               gTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTgggg                                                                                                                                <  2:269471/148‑1 (MQ=255)                  gATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGaaa                                                                                                                            <  5:311846/149‑1 (MQ=255)                    tGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATg                                                                                                                          >  4:21314/1‑149 (MQ=255)                       aCATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGccc                                                                                                                       >  3:79399/1‑149 (MQ=255)                            ggTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGa                                                                                                                   >  4:267396/1‑148 (MQ=255)                              tCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGaaaa                                                                                                                >  2:117575/1‑149 (MQ=255)                               cAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGtgactgtcctcgggttttccggggcatttcc                                                                                                               >  4:146480‑M1/1‑118 (MQ=255)                                 gTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAAccc                                                                                                             >  7:42500/1‑149 (MQ=255)                                   aCGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAAccc                                                                                                             >  3:70754/1‑147 (MQ=255)                                    cGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGa                                                                                                           <  3:21314/148‑1 (MQ=255)                                    cGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGa                                                                                                           <  1:117575/148‑1 (MQ=255)                                          cACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGt                                                                                                    >  2:248512/1‑149 (MQ=255)                                           aCCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGAtgtg                                                                                                                                   <  3:176946/117‑1 (MQ=255)                                                           gagaTGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGtgactgtcctcgggttttccggggcatttcccccacatcgggggccacgacgaagagg                                                                                    <  3:146480‑M1/148‑59 (MQ=255)                                                            agaTGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACt                                                                                  >  2:216469/1‑149 (MQ=255)                                                                      aTCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGcccc                                                                                                                      <  2:110500/103‑1 (MQ=255)                                                                      aTCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGcccc                                                                                                                      >  1:110500/1‑103 (MQ=255)                                                                      aTCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACtgt                                                                                >  2:87539/1‑141 (MQ=255)                                                                      aTCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACtgt                                                                                <  1:87539/141‑1 (MQ=255)                                                                                gcagcaCCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCAGAGGACAGTCACCACGACGCAAGCACtgtgaagc                                                                           >  2:267154/1‑132 (MQ=255)                                                                                 cagcaCCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGtgactgtcctcgggttttccggggcatttcccccacatcgggggccacgacgaagagg                                                                                    >  2:97108‑M1/1‑68 (MQ=255)                                                                                 cagcaCCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGtgactgtcctcgggttttccggggcatttcccccacatcgggggccacgacgaagagg                                                                                    <  1:97108‑M1/126‑59 (MQ=255)                                                                                      ccTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGgcg                                                         >  4:5475/1‑148 (MQ=255)                                                                                          ccgccAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCaa                                                      <  4:79399/147‑1 (MQ=255)                                                                                          ccgccAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCaa                                                      <  1:293056/147‑1 (MQ=255)                                                                                               agccagATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAgg                                                    >  5:21040/1‑144 (MQ=255)                                                                                               agccagATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAgg                                                    <  6:21040/144‑1 (MQ=255)                                                                                                gccagATCAACCCGATAATGAGGCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGGGGGGGAAATGCCCCGGAAAACCCGAGGACCGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGa                                              <  5:175072/149‑1 (MQ=255)                                                                                                  cagATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTTTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAgg                                            <  1:216469/149‑1 (MQ=255)                                                                                                                     gTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTg                         >  8:289178/1‑149 (MQ=255)                                                                                                                      tCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATACCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTg                         >  4:110490/1‑148 (MQ=255)                                                                                                                          cGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTc                                                                        <  2:121985/97‑1 (MQ=255)                                                                                                                          cGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTc                                                                        >  1:121985/1‑97 (MQ=255)                                                                                                                          cGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATgg                    <  8:42500/149‑1 (MQ=255)                                                                                                                             aTGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGc                 <  3:267396/149‑1 (MQ=255)                                                                                                                                 cGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGt             >  8:30185/1‑149 (MQ=255)                                                                                                                                       ccTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCCCCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGTCAACGc       <  6:204529/149‑1 (MQ=255)                                                                                                                                       ccTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCAccacgacgaagaggcgaccggcatgcgtggactcattatcggtttgatctggctggcggcaggtgctgcccaggccgatgtgtacatctc        <  3:146480‑M2/148‑91 (MQ=255)                                                                                                                                       ccTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCAccacgacgaagaggcgaccggcatgcgtggactcattatcggtttgatctggctggcggcaggtgctg                              >  2:97108‑M2/1‑58 (MQ=255)                                                                                                                                       ccTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCAccacgacgaagaggcgaccggcatgcgtggactcattatcggtttgatctggctggcggcaggtgctg                              <  1:97108‑M2/126‑69 (MQ=255)                                                                                                                                       ccTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGTCAACGc       >  3:82254/1‑149 (MQ=255)                                                                                                                                        ctctTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGTCAACGCt      >  8:243975/1‑149 (MQ=255)                                                                                                                                             cgtcgtGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGTCAACGCTTGTc  <  3:5475/148‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                             ATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGCCCCCGATGTGGGGGAAATGCCCCGGAAAACCCGAGGACAGTCACCACGACGCAAGCACTGTGCCGCTTCCTGTGCCGCATGGCGCAAGGCCCCGAGGCAGACGTGCACGGCTGTTGCATGGTGCATGTCAACGCTTGTC  >  NC_002947/3874782‑3875069

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.