New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2476453	47 (0.960)	3 (0.070)	3/236	NT	6.3%	intergenic (‑198/+42)	tcaA/tcaR	teicoplanin resistance protein TcaA/transcriptional regulator TcaR
	?	CP000730	= 2476476	46 (1.040)					intergenic (‑221/+19)	tcaA/tcaR	teicoplanin resistance protein TcaA/transcriptional regulator TcaR

AAATATTATCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCTGT  >  CP000730/2476339‑2476608                                                                                                                                          |                                                                                                                                     aaaTATTATCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTGAGAATTGTACTTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATttg                                                                                                                                   >  2:456050‑M2/1‑138 (MQ=255)            cAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGATGTTCAATACATACATATTTAGTCTTATATTTGAACAACTTCaa                                                                                                                        >  2:101839/1‑141 (MQ=255)              aGAATAAAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATCAAAGTACTCTATAAAAAAAAAAAAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCaaaa                                                                                                                      <  2:235545/141‑1 (MQ=255)                   aCAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTa                                                                                                                 <  1:289079/141‑1 (MQ=255)                    cAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAAAAGCTGTTCAATACATACATATTTAGTCTTATATttgaacaccttcttattagtta                                                                                                                <  1:54991‑M2/141‑23 (MQ=255)                     aaTTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTAtt                                                                                                               <  2:416158/141‑1 (MQ=255)                              aaTGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGGACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATCTATAATTGc                                                                                                      >  2:421350/1‑141 (MQ=255)                                 taTTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCtat                                                                                                   <  2:202118/140‑1 (MQ=255)                                    tAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATg                                                                                                <  1:54817/141‑1 (MQ=255)                                      actttactttAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGtt                                                                                              >  1:183971/1‑141 (MQ=255)                                      actttactttAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGtt                                                                                              >  2:235819/1‑141 (MQ=255)                                      actttacttgAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGtt                                                                                              <  2:555718/141‑1 (MQ=255)                                          tactttaGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTAAAACTCAAAAGAGGGTGTTGAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTaa                                                                                          <  1:304752/141‑1 (MQ=255)                                           actttaGAATTTTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAAt                                                                                         <  1:98912/141‑1 (MQ=255)                                           actttaGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAAt                                                                                         <  1:397602/141‑1 (MQ=255)                                           actttaGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAAt                                                                                         >  1:196829/1‑141 (MQ=255)                                           actttaGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTCATCTTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAAt                                                                                         <  1:161634/141‑1 (MQ=255)                                              ttaGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCg                                                                                      <  2:416196/141‑1 (MQ=255)                                                 gAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAACAACCTATTTATGATTGATATATGTTTTAATGCgatt                                                                                   >  1:74829/1‑140 (MQ=255)                                                 gAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCgatg                                                                                   <  2:55844/141‑1 (MQ=255)                                                  aaTTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCgatga                                                                                  <  2:356956/141‑1 (MQ=255)                                                      gTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGAtgattga                                                                              <  1:471143/141‑1 (MQ=255)                                                       tACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAGTGcaaaggtttat                                                                             >  2:88070/1‑131 (MQ=255)                                                              ttaCATTAGTTATTAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATCTGTCATATTTCGATGATTGATGACTTCt                                                                      <  2:549956/141‑1 (MQ=255)                                                                  atttttTATGAAAGTACTCTTTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATa                                                                  <  2:23519/141‑1 (MQ=255)                                                                        tatGAAATTACTCTATCAACTATAACTAAAAAGAAGGTGTGCAATACATACATATTTAGTCTTAAATTTGAACACCTTCAAAAACCTATTTATGATTGCGATATGTTTTACTGCGATGATTGATGACTTCTAATACTTGcc                                                            <  2:450295/141‑1 (MQ=255)                                                                         atGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATCCAGACATATTTAGTCTTATATTTTAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTACTGCGATGATTGATGACTTCTAATACTTGCCt                                                           <  2:457397/141‑1 (MQ=255)                                                                          tGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGCTGAGTTCTAATCCTTGCCtt                                                          >  2:327530/1‑141 (MQ=255)                                                                           gAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTa                                                         <  1:78035/141‑1 (MQ=255)                                                                                tACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACAttt                                                    <  2:183971/141‑1 (MQ=255)                                                                                  ctctctCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTc                                                  <  1:459818/141‑1 (MQ=255)                                                                                     tctcAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCCATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACCTGTTCAat                                               >  1:72516/1‑141 (MQ=255)                                                                                     tctcAACTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAat                                               <  2:391295/141‑1 (MQ=255)                                                                                     tcccAATTATAACCAAAAAGAATGTGTTCAATACATACTTCTTTAGAATTATACTTGAACACGTTAAAAAACCTATTGATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAat                                               <  2:204940/138‑1 (MQ=255)                                                                                      ctcAATTATAACCAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAata                                              <  1:15311/141‑1 (MQ=255)                                                                                       tcAATTATAAGTAAAAAGAAGGTGTTTAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATTATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAatat                                             <  2:256206/141‑1 (MQ=255)                                                                                       tcAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAatat                                             >  1:143289/1‑141 (MQ=255)                                                                                       tcAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAatat                                             >  1:421729/1‑141 (MQ=255)                                                                                       tcAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAatat                                             >  2:399432/1‑141 (MQ=255)                                                                                       tcAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAatat                                             >  2:539956/1‑141 (MQ=255)                                                                                             ataACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAg                                       >  1:87001/1‑141 (MQ=255)                                                                                             ataACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAg                                       >  1:349331/1‑141 (MQ=255)                                                                                             ataACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAg                                       >  1:516153/1‑141 (MQ=255)                                                                                              taACTTAAAAGAAGGTGTTCAATACATATATATTTAGTCTTATATttgaacaccttctttttagttataattgagagagtactttcataaataatgtaataaggtacaattctaaagtaaagttaatcatttcttgaattg                                      >  2:54991‑M2/1‑45 (MQ=255)                                                                                                  tAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAAttt                                  <  1:531939/141‑1 (MQ=255)                                                                                                      aagaagGTTTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTAATTGTTCAATATCTTCAGAATTTAAAt                              <  2:405177/141‑1 (MQ=255)                                                                                                           ggTGTTCAATACATACATATTTAGTCTTATATttgaacaccttctttttagttaaaattgagagagtactttcataaataatgtaataaggtacaattctaaagtaaagttaatcatttcttgaattgtattcttgggata                         <  1:381478‑M2/141‑110 (MQ=255)                                                                                                                    tacatacaTATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCt                >  1:61602/1‑141 (MQ=255)                                                                                                                        tacataTTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTgcg            <  2:173269/141‑1 (MQ=255)                                                                                                                              tttAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAatat      <  2:272835/141‑1 (MQ=255)                                                                                                                                tAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCt    >  1:285430/1‑141 (MQ=255)                                                                                                                                  gTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCTGt  >  1:262385/1‑141 (MQ=255)                                                                                                                                          |                                                                                                                                     AAATATTATCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTGAACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCTGT  >  CP000730/2476339‑2476608

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.