New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2201286	45 (1.180)	3 (0.090)	3/252	6.0	7.3%	intergenic (+16/+353)	kdpE/cshA	KDP operon transcriptional regulator/ATP‑dependent RNA helicase
	?	CP000730	= 2201313	35 (1.010)					intergenic (+43/+326)	kdpE/cshA	KDP operon transcriptional regulator/ATP‑dependent RNA helicase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TAGTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATACTGAAATTTCATAAAGTTTATTTAT  >  CP000730/2201147‑2201419                                                                                                                                              |                                                                                                                                      tAGTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCg                                                                                                                                      >  1:115100/1‑141 (MQ=255)   gTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCt                                                                                                                                    <  2:268603/141‑1 (MQ=255)   gTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCt                                                                                                                                    >  1:22440/1‑141 (MQ=255)   gTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCt                                                                                                                                    >  2:261224/1‑141 (MQ=255)   gTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATATTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCt                                                                                                                                    >  2:300381/1‑141 (MQ=255)    tttAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTg                                                                                                                                   <  1:317547/141‑1 (MQ=255)        agagTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCAt                                                                                                                               >  1:362077/1‑141 (MQ=255)          agTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTa                                                                                                                             >  1:199759/1‑141 (MQ=255)            tGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTaaa                                                                                                                           <  2:150955/141‑1 (MQ=255)             gCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAAc                                                                                                                          >  2:87366/1‑141 (MQ=255)              cATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACg                                                                                                                         >  1:322308/1‑141 (MQ=255)                  tGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATg                                                                                                                     <  1:180947/141‑1 (MQ=255)                  tGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAAAAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATg                                                                                                                     >  1:123773/1‑141 (MQ=255)                        catTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGc                                                                                                               >  2:333693/1‑141 (MQ=255)                        catTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGc                                                                                                               >  2:123094/1‑141 (MQ=255)                             aGACAAAAACGTTCACACTGTCAATAGAACGAAAAAGATAATATTAAACCACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGt                                                                                                            <  2:163566/141‑1 (MQ=255)                              gACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGAt                                                                                                         <  2:238896/141‑1 (MQ=255)                                cAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCt                                                                                                       <  1:380741/141‑1 (MQ=255)                                          cacaATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATAtt                                                                                             <  2:18935/141‑1 (MQ=255)                                                gTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACtt                                                                                       >  2:197389/1‑141 (MQ=255)                                                        gACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTAttattta                                                                               >  1:105460/1‑141 (MQ=255)                                                           gCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATcg                                                                            <  1:325018/141‑1 (MQ=255)                                                           gCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATcg                                                                            <  2:184769/141‑1 (MQ=255)                                                              aaaGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCgcgc                                                                         <  2:322308/141‑1 (MQ=255)                                                              aaaGATATTATAAAAACACATCCACGCATTGGTAATCAACAGTGCCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCAGTAAACGAATGATTGGCAGTGATCTTTTGTATATTCAACTTATTATTTATCgcgc                                                                         >  2:244837/1‑141 (MQ=255)                                                                     ttattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATAAAAT‑‑AAAAAAAATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCAcaaaaa                                                                  <  2:305885/141‑6 (MQ=255)                                                                      tattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGt                                                                 >  1:73133/1‑141 (MQ=255)                                                                            aaCACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCaa                                                           >  2:97838/1‑141 (MQ=255)                                                                               acaTCCACGCATTGGTTATAAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCaaaaa                                                        >  1:303794/1‑141 (MQ=255)                                                                                     aCGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTa                                                  <  1:181269/141‑1 (MQ=255)                                                                                      cGCAGTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTAt                                                 <  1:251734/141‑1 (MQ=255)                                                                                       gCATTGGTTATGAAATGTTGCAGTGGAAAGAGAAATTATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTAtt                                                <  2:232131/141‑1 (MQ=255)                                                                                            ggTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGtttt                                           >  2:19210/1‑141 (MQ=255)                                                                                             gTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGttttt                                          >  1:25309/1‑141 (MQ=255)                                                                                                  cAAATATTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTTAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATaa                                     <  2:12070/141‑1 (MQ=255)                                                                                                          gCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTATCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGa                             >  1:352351/1‑141 (MQ=255)                                                                                                            aGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGCACATGATa                           >  2:235144/1‑141 (MQ=255)                                                                                                             gTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATTATTGGCATTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATAc                          <  1:245207/141‑1 (MQ=255)                                                                                                             gTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATAc                          <  2:38947/141‑1 (MQ=255)                                                                                                               ggAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATACTg                        >  1:348619/1‑141 (MQ=255)                                                                                                                    gagaAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTCATCTTTTTTATATTCAACTAATTATTTATCGCTCACTAGCGTCATCAAAATGTCCTATTGTTTTTTATAAGAACATAATACTGTAAtt                   >  2:378878/1‑141 (MQ=255)                                                                                                                                aat‑‑aaaAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATACTGAAATTTCATAAAGttta       <  2:115100/141‑1 (MQ=255)                                                                                                                                       aaaaGATCGCTGCCATTAAACGAATGATTGGCAGTg                                                                                                           <  1:411684/36‑1 (MQ=255)                                                                                                                                       aaaaGATCGCTGCCATTAAACGAATGATTGGCAGTg                                                                                                           >  2:411684/1‑36 (MQ=255)                                                                                                                                       aaaaGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATACTGAAATTTCATAAAGTttatttat  <  1:124154/141‑1 (MQ=255)                                                                                                                                              |                                                                                                                                      TAGTTTAAGAGTGCATATGACATCATTAAGACAAAAACTTTCACAATGTCATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAAT‑‑AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTTTTTTATAAGAACATGATACTGAAATTTCATAAAGTTTATTTAT  >  CP000730/2201147‑2201419

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.