New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2476453	44 (0.690)	3 (0.050)	3/248	10.4	7.3%	intergenic (‑198/+42)	tcaA/tcaR	teicoplanin resistance protein TcaA/transcriptional regulator TcaR
	?	CP000730	= 2476476	36 (0.620)					intergenic (‑221/+19)	tcaA/tcaR	teicoplanin resistance protein TcaA/transcriptional regulator TcaR
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AAATATTATCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCT  >  CP000730/2476339‑2476606                                                                                                                                          |                                                                                                                                    aaaTATTATCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTg                                                                                                                                  >  1:91276/1‑141 (MQ=255)     attatCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑Aaca                                                                                                                             <  1:577603/141‑1 (MQ=255)              aGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCaaaa                                                                                                                    <  2:174589/141‑1 (MQ=255)                      aTTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGCAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTAttt                                                                                                            <  2:559642/141‑1 (MQ=255)                              aaTGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGc                                                                                                    <  2:270892/141‑1 (MQ=255)                                 gATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCtat                                                                                                 >  2:47671/1‑141 (MQ=255)                                  aTTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCtata                                                                                                >  1:243920/1‑141 (MQ=255)                                  aTTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCtata                                                                                                <  2:85097/141‑1 (MQ=255)                                   ttAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTatat                                                                                               >  1:426774/1‑141 (MQ=255)                                       ctttactttaGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGttt                                                                                           <  2:484880/141‑1 (MQ=255)                                                aGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCgat                                                                                  <  2:24534/141‑1 (MQ=255)                                                      gTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGAtgattga                                                                            <  1:545421/141‑1 (MQ=255)                                                      gTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGAtgattga                                                                            >  2:173299/1‑141 (MQ=255)                                                        aCCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATtgatg                                                                          <  1:470124/141‑1 (MQ=255)                                                        aCCTTATGACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTAA‑AAAAAAAAAAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATtgatg                                                                          <  2:198118/141‑1 (MQ=255)                                                                aCATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGCTTGCTATATGTTTTAATTCAATGATTGATGACTTCTaa                                                                  >  2:262267/1‑141 (MQ=255)                                                                aCATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTaa                                                                  <  2:2612/141‑1 (MQ=255)                                                                         atGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCt                                                         <  2:658502/141‑1 (MQ=255)                                                                           gAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTa                                                       <  1:203225/141‑1 (MQ=255)                                                                                 aCTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACAtttt                                                 >  2:86559/1‑141 (MQ=255)                                                                                 aCTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACAtttt                                                 >  2:7533/1‑141 (MQ=255)                                                                                            tataACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCCAATACTTGCCTTACATTTTCAATATCTTCa                                      >  2:517582/1‑141 (MQ=255)                                                                                              taACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGa                                    >  1:502507/1‑141 (MQ=255)                                                                                              taACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGa                                    >  1:60043/1‑141 (MQ=255)                                                                                                aCTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTT‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAatcaaaaatttga                                  >  2:701168/1‑130 (MQ=255)                                                                                                aCTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAAt                                  >  1:492079/1‑141 (MQ=255)                                                                                                  tAAAAAGAAGGTGTTCAGGACATGCATGTATAATC‑TATGTTTGTGGTTCCTTGAAAAATCCATCTACAAGCTCTATATGTTTTAATTCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCTATATCTTCAGAAttt                                <  1:456838/141‑1 (MQ=255)                                                                                                  tAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAAttt                                <  1:395523/141‑1 (MQ=255)                                                                                                    aaaaGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAATCCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTaa                              <  1:321214/141‑1 (MQ=255)                                                                                                           ggTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGTTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTa                       >  2:404595/1‑141 (MQ=255)                                                                                                           ggTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCg                                                                                    >  2:421698/1‑80 (MQ=255)                                                                                                           ggTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCg                                                                                    <  1:421698/80‑1 (MQ=255)                                                                                                               ttCAATACATACATATTTAGTCTTATATTTG‑AACAACAACAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTaa                   <  2:55934/141‑1 (MQ=255)                                                                                                                   atacatacATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATc               <  1:464135/141‑1 (MQ=255)                                                                                                                    tacatacaTATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCt              >  2:23783/1‑141 (MQ=255)                                                                                                                          cataTTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCa        >  2:448972/1‑141 (MQ=255)                                                                                                                           atatTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCaa       <  1:552613/141‑1 (MQ=255)                                                                                                                                tAGTCTTGTATGTG‑GACACCTTCAAAAACCTATTTATGATTGCTATGTGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCt  <  2:653497/141‑1 (MQ=255)                                                                                                                                          |                                                                                                                                    AAATATTATCCCAAGAATACAATTCAAGAAATGATTAACTTTACTTTAGAATTGTACCTTATTACATTATTTATGAAAGTACTCTCTCAATTATAACTAAAAAGAAGGTGTTCAATACATACATATTTAGTCTTATATTTG‑AACACCTTCAAAAACCTATTTATGATTGCTATATGTTTTAATGCGATGATTGATGACTTCTAATACTTGCCTTACATTTTCAATATCTTCAGAATTTAAATCATTAGTAATATCTTGCGCAATATCT  >  CP000730/2476339‑2476606

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