New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1966974 =	32 (0.840)	5 (0.140)	5/252	4.3	12.8%	coding (29/111 nt)	USA300HOU_1826	hypothetical protein
	?	CP000730	1966998 =	38 (1.070)					coding (5/111 nt)	USA300HOU_1826	hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACAGGTGTATGTGATGTTTCTTCACCTTTGATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCAAGATTCATTATAGTAATTTTAATCAATTATTAATAGTGGTAA  >  CP000730/1966835‑1967113                                                                                                                                            |                                                                                                                                            aCAGGTGTATGTGATGTTTCTTCACCTTTGATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCaataaata                                                                                                                                            >  2:14305/1‑141 (MQ=255)                     ttcACCTTTGATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTTAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGTCAtt                                                                                                                        <  2:172622/141‑1 (MQ=255)                      tcACCTTTGATCATTTTTATTTTTTTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTTTTTTCAATAAATAAATTTCATAAAACTGACAttt                                                                                                                       >  2:346856/1‑141 (MQ=255)                       cACCTTTGATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTa                                                                                                                      >  1:140572/1‑141 (MQ=255)                             tGATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATa                                                                                                                <  2:298071/141‑1 (MQ=255)                              gATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAg                                                                                                               <  1:98659/141‑1 (MQ=255)                                    ttttAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACtat                                                                                                         <  1:353255/141‑1 (MQ=255)                                    ttttAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACtat                                                                                                         <  1:353260/141‑1 (MQ=255)                                            ttgtattgtTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGta                                                                                                 >  2:256855/1‑141 (MQ=255)                                               tattgtTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGtaaat                                                                                              <  2:432365/141‑1 (MQ=255)                                                      tttATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGGTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAAACATAGAACTATTTATTGtaaatttaaatt                                                                                       >  2:413405/1‑141 (MQ=255)                                                              gCACCATAAAGGCCTCCTACATTAAAATCATTCTTATCTATATAATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTc                                                                               <  2:265068/141‑1 (MQ=255)                                                                aCCATAAATGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCa                                                                             <  2:357706/141‑1 (MQ=255)                                                                            tcctAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATc                                                                 <  1:433964/141‑1 (MQ=255)                                                                            tcctAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATc                                                                 >  2:253673/1‑141 (MQ=255)                                                                                 aaTTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTAc                                                            >  2:206955/1‑141 (MQ=255)                                                                                     aaaaTCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCt                                                        >  1:400095/1‑141 (MQ=255)                                                                                     aaaaTCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCt                                                        >  1:200607/1‑141 (MQ=255)                                                                                     aaaaTCATTCTTATCTATATCATCATATCGCTCATACGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAACGTCCATTATTTTGTATCATTACTTCt                                                        <  2:220512/141‑1 (MQ=255)                                                                                      aaaTCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTa                                                       >  1:380969/1‑141 (MQ=255)                                                                                         tCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAat                                                    >  2:361468/1‑141 (MQ=255)                                                                                           aTTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAatat                                                  <  1:224527/141‑1 (MQ=255)                                                                                            ttCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATAtc                                                 >  1:233681/1‑141 (MQ=255)                                                                                            ttCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATAtc                                                 <  1:62538/141‑1 (MQ=255)                                                                                               ttATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCg                                              >  1:85271/1‑141 (MQ=255)                                                                                               ttATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCg                                              <  1:233506/141‑1 (MQ=255)                                                                                               ttATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGGATCATTACTTCTAAATATCTCg                                              <  1:233519/141‑1 (MQ=255)                                                                                                  tCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCaa                                           <  1:348250/141‑1 (MQ=255)                                                                                                               atCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCAAGATTCATTATAGt                              <  2:129015/141‑1 (MQ=255)                                                                                                                                   ttCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCAAGATTCATTATAGTAATTTTAATCAATTATTAAt          <  2:144925/141‑1 (MQ=255)                                                                                                                                         aaataaatGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCAAGATTCATTATAGTAATTTTAATCAATTATTAATAGTGGt    <  1:346856/141‑1 (MQ=255)                                                                                                                                           ataaatGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCAAGATTCATTATAGTAATTTTAATCAATTATTAATAGTGGTaa  >  1:272807/1‑141 (MQ=255)                                                                                                                                            |                                                                                                                                            ACAGGTGTATGTGATGTTTCTTCACCTTTGATCATTTTTAAAATTGTATTGTTTTTATTATGCACCATAAAGGCCTCCTAAATTAAAATCATTCTTATCTATATTATCATATCGCTCATTCGTTCGTATTTTCAATAAATAAATGTCATAAAACTGACATTTAATCATAGAACTATTTATTGTAAATTTAAATTCTAAAGTCCATTATTTTGTATCATTACTTCTAAATATCTCGCAAGATTCATTATAGTAATTTTAATCAATTATTAATAGTGGTAA  >  CP000730/1966835‑1967113

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.